diff --git a/empty-base.json b/empty-base.json index 0a64387..30b9d7e 100644 --- a/empty-base.json +++ b/empty-base.json @@ -19,12 +19,12 @@ "val" : "EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use." }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2026-02-23" + "val" : "2026-04-04" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", "val" : "Release 2025-07-10" } ], - "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-02-23/empty-base.json" + "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-04-04/empty-base.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/EMPTY_0000001", @@ -77,7 +77,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -86,7 +86,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -95,7 +95,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" } } }, { @@ -104,7 +104,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" } } }, { @@ -113,7 +113,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" } } }, { @@ -122,7 +122,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" } } }, { @@ -131,7 +131,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -140,7 +140,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -149,7 +149,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" } } }, { @@ -158,7 +158,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" } } }, { @@ -167,7 +167,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -176,7 +176,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -185,7 +185,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" } } }, { @@ -194,7 +194,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -203,7 +203,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -212,7 +212,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" } } }, { @@ -221,7 +221,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" } } }, { @@ -230,7 +230,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -239,7 +239,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" } } }, { @@ -248,7 +248,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" } } }, { @@ -257,7 +257,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" } } }, { @@ -266,7 +266,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" } } }, { @@ -275,7 +275,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" } } }, { @@ -284,7 +284,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" } } }, { @@ -293,7 +293,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" } } }, { @@ -302,7 +302,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -311,7 +311,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -320,7 +320,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" } } }, { @@ -329,7 +329,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" } } }, { @@ -338,7 +338,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -347,7 +347,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -356,7 +356,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -365,7 +365,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -374,7 +374,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -383,7 +383,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -392,7 +392,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -401,7 +401,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -410,7 +410,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -419,7 +419,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" } } }, { @@ -428,7 +428,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" } } }, { @@ -437,7 +437,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" } } }, { @@ -446,7 +446,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" } } }, { @@ -455,7 +455,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" } } }, { @@ -464,7 +464,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" } } }, { @@ -473,7 +473,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" } } }, { @@ -500,7 +500,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." + "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." } } }, { @@ -545,7 +545,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" + "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" } } }, { @@ -563,7 +563,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" + "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" } } }, { @@ -572,7 +572,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" + "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" } } }, { @@ -581,7 +581,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." + "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." } } }, { @@ -590,7 +590,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." } } }, { @@ -599,7 +599,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" + "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" } } }, { @@ -608,7 +608,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." } } }, { @@ -635,7 +635,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" } } }, { @@ -1612,7 +1612,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" + "val" : "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" } } }, { @@ -1621,7 +1621,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" + "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" } } }, { @@ -2099,12 +2099,274 @@ "val" : "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." } } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "lbl" : "C. elegans chemotaxis assay parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture table", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000233", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture volume", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000234", + "lbl" : "C. elegans chemotaxis assay parameter: assay duration", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000235", + "lbl" : "C. elegans chemotaxis assay measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000236", + "lbl" : "C. elegans chemotaxis assay measurement: McCutcheon index", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "chemotactic ratio" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000237", + "lbl" : "C. elegans chemotaxis assay measurement: mean velocity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000238", + "lbl" : "investigator-defined strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000239", + "lbl" : "C. elegans strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000240", + "lbl" : "BAB9001", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000241", + "lbl" : "BAB9002", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000242", + "lbl" : "TM5848", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000243", + "lbl" : "PT3602", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000244", + "lbl" : "BAB9003", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000245", + "lbl" : "BAB9004", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000246", + "lbl" : "BAB9005", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000247", + "lbl" : "fluorescence imaging measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence imaging measurement" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000248", + "lbl" : "mean fluorescence intensity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Mean fluorescence intensity. Unit: arbitrary units (AU)" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000249", + "lbl" : "fluorescent punctal count", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000250", + "lbl" : "fluorescence imaging parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific parameter related to fluorescence imaging acquisition or assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000251", + "lbl" : "fluorescence target ontology identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target ontology identifier" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000252", + "lbl" : "fluorescence target name", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target name" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000253", + "lbl" : "SnapGene file format", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000254", + "lbl" : "Escherichia coli OP50: heat-killed", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "lbl" : "C. elegans transfer method: M9 buffer wash", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "lbl" : "C. elegans transfer method: titanium pick", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "lbl" : "C. elegans chemotaxis assay: video recording", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A video recording capturing the behavior of C. elegans during a chemotaxis assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000258", + "lbl" : "fluorescence imaging data", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An image or video acquired using fluorescence microscopy." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_637912", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C14184", "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C14240", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16856", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C172272", "type" : "CLASS" @@ -2192,6 +2454,9 @@ }, { "id" : "http://purl.obolibrary.org/obo/UBERON_0003883", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/format_1929", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000115", "type" : "PROPERTY", @@ -3569,6 +3834,118 @@ "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000230", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C172272" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000101" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000231" + }, { + 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"http://purl.obolibrary.org/obo/EMPTY_0000254", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_637912" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000189" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000189" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000129" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000258", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C16856" } ], "equivalentNodesSets" : [ { "representativeNodeId" : "http://purl.obolibrary.org/obo/EMPTY_0000179", diff --git a/empty-base.obo b/empty-base.obo index 714bf3b..75a4db3 100644 --- a/empty-base.obo +++ b/empty-base.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: empty/releases/2026-02-23/empty-base.owl +data-version: empty/releases/2026-04-04/empty-base.owl idspace: dce http://purl.org/dc/elements/1.1/ idspace: dcterms http://purl.org/dc/terms/ idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# @@ -9,7 +9,7 @@ property_value: dce:type IAO:8000001 property_value: dcterms:description "An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences." xsd:string property_value: dcterms:license https://creativecommons.org/licenses/by/4.0/ property_value: dcterms:title "Experimental Measurements Purposes and Treatments ontologY" xsd:string -property_value: owl:versionInfo "2026-02-23" xsd:string +property_value: owl:versionInfo "2026-04-04" xsd:string property_value: owl:versionInfo "Release 2025-07-10" xsd:string [Term] @@ -44,298 +44,298 @@ is_a: EMPTY:0000002 ! behavioral measurement [Term] id: EMPTY:0000006 name: elevated plus maze: open arm (north) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000007 name: elevated plus maze: open arm (south) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000008 name: elevated plus maze: open arm total entries -def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000009 name: elevated plus maze: open arm (north) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000010 name: elevated plus maze: open arm (south) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000011 name: elevated plus maze: open arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000012 name: elevated plus maze: open arm (north) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000013 name: elevated plus maze: open arm (south) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000014 name: elevated plus maze: open arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000015 name: elevated plus maze: open arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000016 name: elevated plus maze: open arm (north) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000017 name: elevated plus maze: open arm (south) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000018 name: elevated plus maze: open arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000019 name: elevated plus maze: open arm (north) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000020 name: elevated plus maze: open arm (south) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000021 name: elevated plus maze: open arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000022 name: elevated plus maze: open arm (north) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000023 name: elevated plus maze: open arm (south) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000024 name: elevated plus maze: open arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000025 name: elevated plus maze: closed arm (west) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000026 name: elevated plus maze: closed arm (east) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000027 name: elevated plus maze: closed arm total entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000028 name: elevated plus maze: closed arm (west) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000029 name: elevated plus maze: closed arm (east) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000030 name: elevated plus maze: closed arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000031 name: elevated plus maze: closed arm (west) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000032 name: elevated plus maze: closed arm (east) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000033 name: elevated plus maze: closed arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000034 name: elevated plus maze: closed arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000035 name: elevated plus maze: closed arm (west) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000036 name: elevated plus maze: closed arm (east) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000037 name: elevated plus maze: closed arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000038 name: elevated plus maze: closed arm (west) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000039 name: elevated plus maze: closed arm (east) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000040 name: elevated plus maze: closed arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000041 name: elevated plus maze: closed arm (west) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000042 name: elevated plus maze: closed arm (east) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000043 name: elevated plus maze: closed arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000044 name: elevated plus maze: center - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000045 name: elevated plus maze: center - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000046 name: elevated plus maze: center - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000047 name: elevated plus maze: center - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000048 name: elevated plus maze: center - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000049 name: elevated plus maze: center - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000050 name: elevated plus maze: center - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration @@ -354,7 +354,7 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000053 name: fear-potentiated startle: baseline acoustic startle response amplitude -def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." [] +def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -386,7 +386,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000058 name: fear-potentiated startle: apparatus chamber identifier -def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" [] +def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] @@ -398,40 +398,40 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000060 name: acoustic startle response: number of samples -def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" [] +def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000061 name: acoustic startle response: sampling rate -def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" [] +def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000062 name: acoustic startle response: startle window onset amplitude -def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." [] +def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000063 name: acoustic startle response: maximum amplitude -def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000064 name: acoustic startle response: time to maximum amplitude -def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" [] +def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000065 name: acoustic startle response: average amplitude -def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -451,7 +451,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000068 name: elevated plus maze: test duration -def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration is_a: EMPTY:0000092 ! elevated plus maze parameter @@ -1155,13 +1155,13 @@ is_a: EMPTY:0000164 ! contextual fear conditioning parameter [Term] id: EMPTY:0000175 name: contextual fear conditioning: time freezing -def: "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" [] +def: "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement [Term] id: EMPTY:0000176 name: contextual fear conditioning: block duration -def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" [] +def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement is_a: EMPTY:0000164 ! contextual fear conditioning parameter @@ -1501,3 +1501,172 @@ name: unknown electronic file type def: "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." [] is_a: NCIT:C172272 +[Term] +id: EMPTY:0000231 +name: C. elegans chemotaxis assay parameter +def: "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." [] +is_a: EMPTY:0000101 ! C. elegans behavioral assay parameter + +[Term] +id: EMPTY:0000232 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture table +def: "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000233 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture volume +def: "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000234 +name: C. elegans chemotaxis assay parameter: assay duration +def: "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000235 +name: C. elegans chemotaxis assay measurement +def: "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." [] +is_a: EMPTY:0000100 ! C. elegans behavioral assay measurement + +[Term] +id: EMPTY:0000236 +name: C. elegans chemotaxis assay measurement: McCutcheon index +def: "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." [] +synonym: "chemotactic ratio" EXACT [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000237 +name: C. elegans chemotaxis assay measurement: mean velocity +def: "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000238 +name: investigator-defined strain +def: "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." [] +is_a: EMPTY:0000076 ! descriptor + +[Term] +id: EMPTY:0000239 +name: C. elegans strain +def: "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." [] +is_a: EMPTY:0000238 ! investigator-defined strain + +[Term] +id: EMPTY:0000240 +name: BAB9001 +def: "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000241 +name: BAB9002 +def: "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000242 +name: TM5848 +def: "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000243 +name: PT3602 +def: "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000244 +name: BAB9003 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000245 +name: BAB9004 +def: "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000246 +name: BAB9005 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000247 +name: fluorescence imaging measurement +def: "fluorescence imaging measurement" [] +is_a: EMPTY:0000001 ! measurement + +[Term] +id: EMPTY:0000248 +name: mean fluorescence intensity +def: "Mean fluorescence intensity. Unit: arbitrary units (AU)" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000249 +name: fluorescent punctal count +def: "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000250 +name: fluorescence imaging parameter +def: "A specific parameter related to fluorescence imaging acquisition or assay." [] +is_a: EMPTY:0000080 ! parameter + +[Term] +id: EMPTY:0000251 +name: fluorescence target ontology identifier +def: "fluorescence target ontology identifier" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000252 +name: fluorescence target name +def: "fluorescence target name" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000253 +name: SnapGene file format +def: "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." [] +is_a: format:1929 + +[Term] +id: EMPTY:0000254 +name: Escherichia coli OP50: heat-killed +def: "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." [] +is_a: NCBITaxon:637912 + +[Term] +id: EMPTY:0000255 +name: C. elegans transfer method: M9 buffer wash +def: "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000256 +name: C. elegans transfer method: titanium pick +def: "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000257 +name: C. elegans chemotaxis assay: video recording +def: "A video recording capturing the behavior of C. elegans during a chemotaxis assay." [] +is_a: EMPTY:0000129 ! C. elegans behavioral assay: video recording + +[Term] +id: EMPTY:0000258 +name: fluorescence imaging data +def: "An image or video acquired using fluorescence microscopy." [] +is_a: NCIT:C16856 + diff --git a/empty-base.owl b/empty-base.owl index 40ef4ba..f7d072d 100644 --- a/empty-base.owl +++ b/empty-base.owl @@ -11,14 +11,14 @@ xmlns:dcterms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences. Experimental Measurements Purposes and Treatments ontologY EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. Release 2025-07-10 - 2026-02-23 + 2026-04-04 @@ -140,7 +140,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (north) - entries @@ -150,7 +150,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (south) - entries @@ -160,7 +160,7 @@ - In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count + In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count elevated plus maze: open arm total entries @@ -170,7 +170,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count elevated plus maze: open arm (north) - head entries @@ -180,7 +180,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count elevated plus maze: open arm (south) - head entries @@ -190,7 +190,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count elevated plus maze: open arm total head entries @@ -201,7 +201,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - time @@ -212,7 +212,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time @@ -223,7 +223,7 @@ - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds elevated plus maze: open arm total time @@ -233,7 +233,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: % elevated plus maze: open arm total - percent time during test duration @@ -244,7 +244,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - latency to first entry @@ -255,7 +255,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - latency to first entry @@ -266,7 +266,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds elevated plus maze: open arm total latency to first entry @@ -277,7 +277,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (north) - time moving towards @@ -288,7 +288,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (south) - time moving towards @@ -299,7 +299,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds elevated plus maze: open arm total time moving towards @@ -310,7 +310,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds elevated plus maze: open arm (north) - time freezing @@ -321,7 +321,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time freezing @@ -332,7 +332,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds elevated plus maze: open arm total time freezing @@ -342,7 +342,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count elevated plus maze: closed arm (west) - entries @@ -352,7 +352,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count elevated plus maze: closed arm (east) - entries @@ -362,7 +362,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count elevated plus maze: closed arm total entries @@ -372,7 +372,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count elevated plus maze: closed arm (west) - head entries @@ -382,7 +382,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count elevated plus maze: closed arm (east) - head entries @@ -392,7 +392,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count elevated plus maze: closed arm total head entries @@ -403,7 +403,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time @@ -414,7 +414,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time @@ -425,7 +425,7 @@ - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds elevated plus maze: closed arm total time @@ -435,7 +435,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: % elevated plus maze: closed arm total - percent time during test duration @@ -446,7 +446,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - latency to first entry @@ -457,7 +457,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - latency to first entry @@ -468,7 +468,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total latency to first entry @@ -479,7 +479,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time moving towards @@ -490,7 +490,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time moving towards @@ -501,7 +501,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time moving towards @@ -512,7 +512,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time freezing @@ -523,7 +523,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time freezing @@ -534,7 +534,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time freezing @@ -544,7 +544,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count elevated plus maze: center - entries @@ -554,7 +554,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count elevated plus maze: center - head entries @@ -565,7 +565,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds elevated plus maze: center - time @@ -575,7 +575,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: % elevated plus maze: center - percent time during test duration @@ -586,7 +586,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds elevated plus maze: center - latency to first entry @@ -597,7 +597,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds elevated plus maze: center - time moving towards @@ -608,7 +608,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds elevated plus maze: center - time freezing @@ -639,7 +639,7 @@ - In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score. + In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score. fear-potentiated startle: baseline acoustic startle response amplitude @@ -690,7 +690,7 @@ - Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string + Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string fear-potentiated startle: apparatus chamber identifier @@ -710,7 +710,7 @@ - The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count + The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count acoustic startle response: number of samples @@ -720,7 +720,7 @@ - The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz) + The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz) acoustic startle response: sampling rate @@ -731,7 +731,7 @@ - The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration. + The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration. acoustic startle response: startle window onset amplitude @@ -742,7 +742,7 @@ - The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units. + The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units. acoustic startle response: maximum amplitude @@ -753,7 +753,7 @@ - The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms) + The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms) acoustic startle response: time to maximum amplitude @@ -764,7 +764,7 @@ - The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units. + The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units. acoustic startle response: average amplitude @@ -797,7 +797,7 @@ - In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds elevated plus maze: test duration @@ -1927,7 +1927,7 @@ - The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds + The number of seconds the individual spent freezing during a given period of time. Unit: seconds contextual fear conditioning: time freezing @@ -1938,7 +1938,7 @@ - In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds + In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds contextual fear conditioning: block duration @@ -2496,6 +2496,293 @@ + + + + + A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans. + C. elegans chemotaxis assay parameter + + + + + + + + + A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans. + C. elegans chemotaxis assay parameter: chemoattractant mixture table + + + + + + + + + The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL). + C. elegans chemotaxis assay parameter: chemoattractant mixture volume + + + + + + + + + The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes. + C. elegans chemotaxis assay parameter: assay duration + + + + + + + + + A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source. + C. elegans chemotaxis assay measurement + + + + + + + + + A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1. + chemotactic ratio + C. elegans chemotaxis assay measurement: McCutcheon index + + + + + + + + + The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s). + C. elegans chemotaxis assay measurement: mean velocity + + + + + + + + + A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository. + investigator-defined strain + + + + + + + + + A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures. + C. elegans strain + + + + + + + + + A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD] + BAB9001 + + + + + + + + + A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD] + BAB9002 + + + + + + + + + A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD] + TM5848 + + + + + + + + + A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD] + PT3602 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD] + BAB9003 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9004 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9005 + + + + + + + + + fluorescence imaging measurement + fluorescence imaging measurement + + + + + + + + + Mean fluorescence intensity. Unit: arbitrary units (AU) + mean fluorescence intensity + + + + + + + + + A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count + fluorescent punctal count + + + + + + + + + A specific parameter related to fluorescence imaging acquisition or assay. + fluorescence imaging parameter + + + + + + + + + fluorescence target ontology identifier + fluorescence target ontology identifier + + + + + + + + + fluorescence target name + fluorescence target name + + + + + + + + + A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites. + SnapGene file format + + + + + + + + + A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays. + Escherichia coli OP50: heat-killed + + + + + + + + + Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper. + C. elegans transfer method: M9 buffer wash + + + + + + + + + Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate. + C. elegans transfer method: titanium pick + + + + + + + + + A video recording capturing the behavior of C. elegans during a chemotaxis assay. + C. elegans chemotaxis assay: video recording + + + + + + + + + An image or video acquired using fluorescence microscopy. + fluorescence imaging data + + + + + + + + + + @@ -2508,6 +2795,12 @@ + + + + + + @@ -2679,6 +2972,12 @@ + + + + + + diff --git a/empty-full.json b/empty-full.json index 1334dfd..c49b508 100644 --- a/empty-full.json +++ b/empty-full.json @@ -16,12 +16,12 @@ "val" : "EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use." }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2026-02-23" + "val" : "2026-04-04" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", "val" : "Release 2025-07-10" } ], - "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-02-23/empty-full.json" + "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-04-04/empty-full.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/BFO_0000001", @@ -129,7 +129,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." + "val" : "Elementary particle not affected by the strong force having a spin ½, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." } } }, { @@ -138,7 +138,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." + "val" : "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." } } }, { @@ -165,7 +165,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any steroid that has beta-configuration at position 5." + "val" : "Any steroid that has β-configuration at position 5." } } }, { @@ -174,7 +174,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." + "val" : "A Brønsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." } } }, { @@ -183,7 +183,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration." + "val" : "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5α-configuration." } } }, { @@ -192,7 +192,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa)." + "val" : "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0°C and 100 kPa)." } } }, { @@ -214,7 +214,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." + "val" : "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." } } }, { @@ -223,7 +223,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -253,6 +253,15 @@ "val" : "A simple monocarboxylic acid containing two carbons." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "lbl" : "hydron", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes)." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_15379", "lbl" : "dioxygen", @@ -263,7 +272,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals." + "val" : "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n ≥ 2) and their intramolecular hemiacetals." } } }, { @@ -272,7 +281,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid having L-configuration at the alpha-carbon." + "val" : "Any α-amino acid having L-configuration at the α-carbon." } } }, { @@ -290,7 +299,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An optically active form of glutamic acid having D-configuration." + "val" : "An optically active form of glutamic acid having D-configuration." } } }, { @@ -308,7 +317,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An optically active form of glutamic acid having L-configuration." + "val" : "An optically active form of glutamic acid having L-configuration." } } }, { @@ -368,7 +377,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_166902", "lbl" : "noradrenaline(1+)", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_16733", "lbl" : "D-alpha-amino acid", @@ -397,7 +411,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4." + "val" : "A γ-amino acid that is butanoic acid with the amino substituent located at C-4." } } }, { @@ -415,7 +429,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." + "val" : "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." } } }, { @@ -460,7 +474,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any D-aldose having a chain of six carbon atoms in the molecule." + "val" : "Any D-aldose having a chain of six carbon atoms in the molecule." } } }, { @@ -469,7 +483,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A glucose with D-configuration." + "val" : "A glucose with D-configuration." } } }, { @@ -541,7 +555,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2." + "val" : "An α-amino acid that is glutaric acid bearing a single amino substituent at position 2." } } }, { @@ -559,7 +573,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The R-enantiomer of noradrenaline." + "val" : "The R-enantiomer of noradrenaline." } } }, { @@ -616,7 +630,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base)." + "val" : "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Brønsted base) or with the vacant orbital of some other molecular entity (Lewis base)." } } }, { @@ -629,7 +643,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any compound that produces a peak used as reference frequency in the delta chemical shift scale." + "val" : "Any compound that produces a peak used as reference frequency in the δ chemical shift scale." } } }, { @@ -672,6 +686,15 @@ "val" : "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "lbl" : "(S)-noradrenaline(1+)", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An organic cation that is the conjugate acid of (S)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_23449", "lbl" : "cyclic peptide", @@ -704,7 +727,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." + "val" : "An L-α-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." } } }, { @@ -713,7 +736,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." + "val" : "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2)." } } }, { @@ -789,7 +812,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-))." + "val" : "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH)." } } }, { @@ -798,7 +821,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position." + "val" : "Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position." } } }, { @@ -903,7 +926,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." + "val" : "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (‒CH2‒CH2‒). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." } } }, { @@ -1017,7 +1040,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." + "val" : "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." } } }, { @@ -1140,7 +1163,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." + "val" : "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." } } }, { @@ -1233,7 +1256,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -1242,7 +1265,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -1251,7 +1274,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dicarboxylic acid dianion that is the conjugate base of glutamate(1-)." + "val" : "A dicarboxylic acid dianion that is the conjugate base of glutamate(1−)." } } }, { @@ -1260,7 +1283,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." + "val" : "An L-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." } } }, { @@ -1291,7 +1314,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid." + "val" : "An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid." } } }, { @@ -1309,7 +1332,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration." + "val" : "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration." } } }, { @@ -1410,6 +1433,10 @@ "val" : "A chemical entity constituting the smallest component of an element having the chemical properties of the element." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "lbl" : "monoatomic hydrogen", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_33252", "lbl" : "atomic nucleus", @@ -1446,6 +1473,10 @@ "val" : "A molecular entity all atoms of which have the same atomic number." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "lbl" : "elemental hydrogen", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_33262", "lbl" : "elemental oxygen", @@ -1549,7 +1580,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl." + "val" : "An ester of a carboxylic acid, R1C(=O)OR2, where R1 = H or organyl and R2 = organyl." } } }, { @@ -1600,7 +1631,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid anion obtained by deprotonation of any alpha-amino acid." + "val" : "An amino-acid anion obtained by deprotonation of any α-amino acid." } } }, { @@ -1622,7 +1653,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any compound containing an o-diphenol component." + "val" : "Any compound containing an o-diphenol component." } } }, { @@ -1653,7 +1684,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The S-enantiomer of noradrenaline." + "val" : "The S-enantiomer of noradrenaline." } } }, { @@ -1662,7 +1693,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." + "val" : "A carbon oxoacid acid carrying at least one ‒C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." } } }, { @@ -1710,7 +1741,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character." + "val" : "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekulé structure) is said to possess aromatic character." } } }, { @@ -1820,7 +1851,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group." + "val" : "An amino acid in which the amino group is located on the carbon atom at the position α to the carboxy group." } } }, { @@ -1829,7 +1860,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group." + "val" : "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group." } } }, { @@ -1856,7 +1887,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid residue derived from an alpha-amino acid." + "val" : "An amino-acid residue derived from an α-amino acid." } } }, { @@ -1903,7 +1934,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2)." + "val" : "A heterocyclic compound formally derived from an arene by replacement of one or more methine (‒C=) and/or vinylene (‒CH=CH‒) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous π-electron system characteristic of aromatic systems and a number of out-of-plane π-electrons corresponding to the Hückel rule (4n+2)." } } }, { @@ -2019,7 +2050,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." + "val" : "A derivative of ammonium, NH4+, in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." } } }, { @@ -2028,7 +2059,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc)." + "val" : "A derivative of ammonium, NH4+, in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc)." } } }, { @@ -2077,7 +2108,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." + "val" : "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H‒[CHOH]n‒C(=O)[CHOH]m‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." } } }, { @@ -2138,7 +2169,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An agent that selectively binds to and activates alpha-adrenergic receptors." + "val" : "An agent that selectively binds to and activates α-adrenergic receptors." } } }, { @@ -2147,7 +2178,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n." + "val" : "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOyn for some integers x, y and n." } } }, { @@ -2251,7 +2282,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Members of the class of cholanic acids based on a 5beta-cholane skeleton." + "val" : "Members of the class of cholanic acids based on a 5β-cholane skeleton." } } }, { @@ -2273,7 +2304,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin)." + "val" : "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek λεπτοσ (small, thin)." } } }, { @@ -2282,7 +2313,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy)." + "val" : "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek βαρυσ (heavy)." } } }, { @@ -2476,7 +2507,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." + "val" : "An acid is a molecular entity capable of donating a hydron (Brønsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." } } }, { @@ -2494,7 +2525,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom." + "val" : "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the ‒C(=O)NH2 group including its carbon atom." } } }, { @@ -2617,7 +2648,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity capable of donating a hydron to an acceptor (Bronsted base)." + "val" : "A molecular entity capable of donating a hydron to an acceptor (Brønsted base)." } } }, { @@ -2626,7 +2657,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity capable of accepting a hydron from a donor (Bronsted acid)." + "val" : "A molecular entity capable of accepting a hydron from a donor (Brønsted acid)." } } }, { @@ -2657,7 +2688,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A glucopyranose having D-configuration." + "val" : "A glucopyranose having D-configuration." } } }, { @@ -2666,7 +2697,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A hexose that has D-configuration at position 5." + "val" : "A hexose that has D-configuration at position 5." } } }, { @@ -2740,7 +2771,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any drug that acts on an alpha-adrenergic receptor." + "val" : "Any drug that acts on an α-adrenergic receptor." } } }, { @@ -2943,7 +2974,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_52211", "lbl" : "physiological role", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A biological role relating to the normal mechanisms and their interactions within a living system." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_52217", "lbl" : "pharmaceutical", @@ -3040,7 +3076,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." + "val" : "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." } } }, { @@ -3049,7 +3085,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any fatty acid anion in which there is no C-C unsaturation." + "val" : "Any fatty acid anion in which there is no C‒C unsaturation." } } }, { @@ -3067,7 +3103,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic anion of general formula RS(=O)2O(-) where R is an organyl group." + "val" : "An organic anion of general formula RS(=O)2O(−) where R is an organyl group." } } }, { @@ -3112,7 +3148,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group." + "val" : "Conjugate base of an L-α-amino acid arising from deprotonation of the C-1 carboxy group." } } }, { @@ -3121,7 +3157,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of an L-α-amino acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3130,7 +3166,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of a D-α-amino acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3139,7 +3175,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3202,7 +3238,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid anion in which the parent amino acid has D-configuration." + "val" : "Any α-amino acid anion in which the parent amino acid has D-configuration." } } }, { @@ -3337,7 +3373,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic molecular entity containing a single carbon atom (C1)." + "val" : "An organic molecular entity containing a single carbon atom (C1)." } } }, { @@ -3454,7 +3490,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group." + "val" : "An amino-acid anion in which the amino group is situated γ- to the carboxylate group." } } }, { @@ -3463,7 +3499,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3." + "val" : "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." } } }, { @@ -3508,7 +3544,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*)." + "val" : "A ligase inhibitor that interferes with the action of a CN bond-forming ligase (EC 6.3.*.*)." } } }, { @@ -3616,7 +3652,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." + "val" : "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." } } }, { @@ -3724,7 +3760,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." + "val" : "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any α-amino acid; major species at pH 7.3." } } }, { @@ -3796,7 +3832,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." + "val" : "Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." } } }, { @@ -3814,7 +3850,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." + "val" : "Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids." } } }, { @@ -7724,7 +7760,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -7733,7 +7769,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -7742,7 +7778,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" } } }, { @@ -7751,7 +7787,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" } } }, { @@ -7760,7 +7796,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" } } }, { @@ -7769,7 +7805,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" } } }, { @@ -7778,7 +7814,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -7787,7 +7823,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7796,7 +7832,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" } } }, { @@ -7805,7 +7841,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" } } }, { @@ -7814,7 +7850,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -7823,7 +7859,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7832,7 +7868,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" } } }, { @@ -7841,7 +7877,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -7850,7 +7886,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -7859,7 +7895,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" } } }, { @@ -7868,7 +7904,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" } } }, { @@ -7877,7 +7913,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7886,7 +7922,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" } } }, { @@ -7895,7 +7931,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" } } }, { @@ -7904,7 +7940,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" } } }, { @@ -7913,7 +7949,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" } } }, { @@ -7922,7 +7958,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" } } }, { @@ -7931,7 +7967,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" } } }, { @@ -7940,7 +7976,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" } } }, { @@ -7949,7 +7985,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -7958,7 +7994,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -7967,7 +8003,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" } } }, { @@ -7976,7 +8012,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" } } }, { @@ -7985,7 +8021,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -7994,7 +8030,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8003,7 +8039,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8012,7 +8048,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -8021,7 +8057,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8030,7 +8066,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8039,7 +8075,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -8048,7 +8084,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8057,7 +8093,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8066,7 +8102,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" } } }, { @@ -8075,7 +8111,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" } } }, { @@ -8084,7 +8120,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" } } }, { @@ -8093,7 +8129,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" } } }, { @@ -8102,7 +8138,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" } } }, { @@ -8111,7 +8147,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" } } }, { @@ -8120,7 +8156,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" } } }, { @@ -8147,7 +8183,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." + "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." } } }, { @@ -8192,7 +8228,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" + "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" } } }, { @@ -8210,7 +8246,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" + "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" } } }, { @@ -8219,7 +8255,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" + "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" } } }, { @@ -8228,7 +8264,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." + "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." } } }, { @@ -8237,7 +8273,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." } } }, { @@ -8246,7 +8282,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" + "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" } } }, { @@ -8255,7 +8291,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." } } }, { @@ -8282,7 +8318,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" } } }, { @@ -9259,7 +9295,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" + "val" : "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" } } }, { @@ -9268,7 +9304,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" + "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" } } }, { @@ -9746,6 +9782,262 @@ "val" : "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." } } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "lbl" : "C. elegans chemotaxis assay parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture table", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000233", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture volume", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000234", + "lbl" : "C. elegans chemotaxis assay parameter: assay duration", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000235", + "lbl" : "C. elegans chemotaxis assay measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000236", + "lbl" : "C. elegans chemotaxis assay measurement: McCutcheon index", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "chemotactic ratio" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000237", + "lbl" : "C. elegans chemotaxis assay measurement: mean velocity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000238", + "lbl" : "investigator-defined strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000239", + "lbl" : "C. elegans strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000240", + "lbl" : "BAB9001", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000241", + "lbl" : "BAB9002", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000242", + "lbl" : "TM5848", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000243", + "lbl" : "PT3602", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000244", + "lbl" : "BAB9003", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000245", + "lbl" : "BAB9004", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000246", + "lbl" : "BAB9005", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000247", + "lbl" : "fluorescence imaging measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence imaging measurement" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000248", + "lbl" : "mean fluorescence intensity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Mean fluorescence intensity. Unit: arbitrary units (AU)" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000249", + "lbl" : "fluorescent punctal count", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000250", + "lbl" : "fluorescence imaging parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific parameter related to fluorescence imaging acquisition or assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000251", + "lbl" : "fluorescence target ontology identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target ontology identifier" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000252", + "lbl" : "fluorescence target name", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target name" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000253", + "lbl" : "SnapGene file format", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000254", + "lbl" : "Escherichia coli OP50: heat-killed", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "lbl" : "C. elegans transfer method: M9 buffer wash", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "lbl" : "C. elegans transfer method: titanium pick", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "lbl" : "C. elegans chemotaxis assay: video recording", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A video recording capturing the behavior of C. elegans during a chemotaxis assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000258", + "lbl" : "fluorescence imaging data", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An image or video acquired using fluorescence microscopy." + } + } }, { "id" : "http://purl.obolibrary.org/obo/ENVO_00000447", "type" : "CLASS" @@ -15958,6 +16250,10 @@ "id" : "http://purl.obolibrary.org/obo/GO_0010070", "lbl" : "zygote asymmetric cell division", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0010155", + "lbl" : "regulation of proton transport", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0010160", "lbl" : "formation of animal organ boundary", @@ -16958,14 +17254,6 @@ "id" : "http://purl.obolibrary.org/obo/GO_0014874", "lbl" : "response to stimulus involved in regulation of muscle adaptation", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0014878", - "lbl" : "response to electrical stimulus involved in regulation of muscle adaptation", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0014879", - "lbl" : "detection of electrical stimulus involved in regulation of muscle adaptation", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0014887", "lbl" : "cardiac muscle adaptation", @@ -17024,6 +17312,19 @@ "val" : "ion transporter activity" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0015078", + "lbl" : "proton transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion transmembrane transporter activity" + }, { + "pred" : "hasExactSynonym", + "val" : "proton transporter activity" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015081", "lbl" : "sodium ion transmembrane transporter activity", @@ -24603,7 +24904,11 @@ "meta" : { "definition" : { "val" : "Any constituent part of a virion, a complete fully infectious extracellular virus particle." - } + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "virion part" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0044458", @@ -29824,10 +30129,6 @@ "val" : "upregulation of pigment cell differentiation" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050952", - "lbl" : "sensory perception of electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0050953", "lbl" : "sensory perception of light stimulus", @@ -29845,19 +30146,6 @@ "val" : "perception of mechanical stimulus" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050956", - "lbl" : "electroception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electroception sense" - }, { - "pred" : "hasExactSynonym", - "val" : "electroceptive sense" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0050962", "lbl" : "detection of light stimulus involved in sensory perception", @@ -29883,66 +30171,6 @@ "val" : "sensory transduction of light stimulus during sensory perception" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050963", - "lbl" : "detection of electrical stimulus involved in sensory perception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory detection of electrical stimulus during sensory perception" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory perception, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory perception, sensory transduction of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory transduction of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory transduction of electrical stimulus during sensory perception" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050964", - "lbl" : "detection of electrical stimulus involved in electroception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electroception, detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory transduction" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory transduction of electrical stimulus" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050967", - "lbl" : "detection of electrical stimulus involved in sensory perception of pain", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "perception of pain, detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "perception of pain, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "perception of pain, sensory transduction of electrical stimulus" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0050968", "lbl" : "detection of chemical stimulus involved in sensory perception of pain", @@ -29984,10 +30212,6 @@ "val" : "tactition" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050981", - "lbl" : "detection of electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0050994", "lbl" : "regulation of lipid catabolic process", @@ -31051,10 +31275,6 @@ "val" : "upregulation of neurotransmitter transport" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051602", - "lbl" : "response to electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0051606", "lbl" : "detection of stimulus", @@ -35960,6 +36180,16 @@ "id" : "http://purl.obolibrary.org/obo/GO_0120025", "lbl" : "plasma membrane bounded cell projection", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0120029", + "lbl" : "proton export across plasma membrane", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion export across plasma membrane" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0120031", "lbl" : "plasma membrane bounded cell projection assembly", @@ -37574,6 +37804,19 @@ "id" : "http://purl.obolibrary.org/obo/GO_1902570", "lbl" : "protein localization to nucleolus", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1902600", + "lbl" : "proton transmembrane transport", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion transmembrane transport" + }, { + "pred" : "hasExactSynonym", + "val" : "hydrogen transmembrane transport" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1902679", "lbl" : "negative regulation of RNA biosynthetic process", @@ -40666,6 +40909,14 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1206795", "lbl" : "Lophotrochozoa", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1224", + "lbl" : "Pseudomonadota", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1236", + "lbl" : "Gammaproteobacteria", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_124129", "lbl" : "Acipenserinae", @@ -40840,9 +41091,6 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "eucaryotes" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "eukaryotes" } ] @@ -40957,6 +41205,9 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "animals" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "metazoans" }, { @@ -41004,6 +41255,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3378", "lbl" : "Gnetales", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3379134", + "lbl" : "Pseudomonadati", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3398", "lbl" : "Magnoliopsida", @@ -41150,6 +41405,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_50557", "lbl" : "Insecta", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_543", + "lbl" : "Enterobacteriaceae", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_554915", "lbl" : "Amoebozoa", @@ -41162,6 +41421,14 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_55885", "lbl" : "Peloderinae", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_561", + "lbl" : "Escherichia", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_562", + "lbl" : "Escherichia coli", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_5782", "lbl" : "Dictyostelium", @@ -41222,6 +41489,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_6362", "lbl" : "Sabellida", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_637912", + "lbl" : "Escherichia coli OP50", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_6656", "lbl" : "Arthropoda", @@ -41443,6 +41714,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_89593", "lbl" : "Craniata ", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_91347", + "lbl" : "Enterobacterales", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9254", "lbl" : "Prototheria", @@ -41527,10 +41802,22 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C14376", "lbl" : "Other Organism Groupings", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16203", + "lbl" : "Clinical or Research Activity", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C16847", "lbl" : "Technique", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16853", + "lbl" : "Microscopy", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16856", + "lbl" : "Fluorescence Microscopy", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C17187", "lbl" : "Technology", @@ -41539,10 +41826,18 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C172272", "lbl" : "Electronic File Content Type", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C17369", + "lbl" : "Imaging Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C179817", "lbl" : "Velocity", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C17995", + "lbl" : "Light Microscopy", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C18141", "lbl" : "Computer Sciences", @@ -41599,6 +41894,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C25206", "lbl" : "Temperature", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C25218", + "lbl" : "Clinical Intervention or Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C25284", "lbl" : "Type", @@ -41607,6 +41906,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C25285", "lbl" : "Diameter", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C25294", + "lbl" : "Laboratory Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C25335", "lbl" : "Volume", @@ -41699,6 +42002,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C73706", "lbl" : "Spatial Qualifier", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C74957", + "lbl" : "Mixed Category Laboratory Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C85776", "lbl" : "Optical Density Measurement", @@ -44550,6 +44857,10 @@ "id" : "http://purl.obolibrary.org/obo/UBERON_0000000", "lbl" : "processual entity", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/UBERON_0000001", + "lbl" : "gross anatomical part", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/UBERON_0000005", "lbl" : "chemosensory organ", @@ -44765,6 +45076,9 @@ "lbl" : "anatomical structure", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." + }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological structure" @@ -55591,19 +55905,6 @@ "id" : "http://purl.obolibrary.org/obo/UBERON_0010499", "lbl" : "pseudostratified ciliated columnar epithelium", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "lbl" : "electroreceptor organ", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electric sense organ" - }, { - "pred" : "hasExactSynonym", - "val" : "electroreception organ" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/UBERON_0010522", "lbl" : "replacement element", @@ -58544,6 +58845,10 @@ "val" : "rectal lamina propria" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "lbl" : "epithelium of anorectum", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/UO_0000001", "lbl" : "length unit", @@ -58584,6 +58889,12 @@ "id" : "http://purl.obolibrary.org/obo/UO_0000280", "lbl" : "rate unit", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/format_1929", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon:637912", + "type" : "CLASS" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass", "lbl" : "Obsolete Class", @@ -61132,6 +61443,89 @@ "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." } } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018030", + "lbl" : "chemical relationship", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018033", + "lbl" : "is deprotonated form of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018034", + "lbl" : "is protonated form of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018036", + "lbl" : "is tautomer of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Two chemicals are tautomers if they can be readily interconverted.\n\nThis commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "is desmotrope of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018037", + "lbl" : "is substitutent group from", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018038", + "lbl" : "has functional parent", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. \n\nFor example, the relationship between a salt and a freebased compound is a \"has functional parent\" relationship." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018039", + "lbl" : "is enantiomer of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center.\n\nA chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers)." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "is optical isomer of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018040", + "lbl" : "has parent hydride", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B." + } + } }, { "id" : "http://purl.obolibrary.org/obo/RO_0019000", "lbl" : "regulates characteristic", @@ -61232,10 +61626,6 @@ "id" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", "type" : "PROPERTY", "propertyType" : "OBJECT" - }, { - "id" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", - "type" : "PROPERTY", - "propertyType" : "OBJECT" }, { "id" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", "type" : "PROPERTY", @@ -64469,7 +64859,7 @@ "propertyType" : "ANNOTATION", "meta" : { "definition" : { - "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + "val" : "The official definition." } } }, { @@ -64592,6 +64982,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_63551" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16336" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64624,6 +65018,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28616" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64634,7 +65032,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_26666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_140601", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_78115" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_142163", @@ -64654,12 +65052,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_14321", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_14321", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15339", "pred" : "is_a", @@ -64716,10 +65114,30 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_83056" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_30089" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30089" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25414" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33251" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33252" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_60242" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "is_a", @@ -64760,6 +65178,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77974" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29793" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64774,11 +65196,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15705", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59814" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15705", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59869" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15841", @@ -64802,11 +65224,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15986", @@ -64854,11 +65276,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", @@ -64896,6 +65318,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_78433" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28938" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29337" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -64928,6 +65358,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_45696" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64944,6 +65378,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_132153" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -64976,6 +65414,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_60466" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", @@ -64990,7 +65432,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35274" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_166902", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33569" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", @@ -64998,11 +65440,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_83925" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_60895" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59871" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_167559", @@ -65036,6 +65478,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_57887" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -65066,16 +65512,16 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30566" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59888" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16990", "pred" : "is_a", @@ -65102,7 +65548,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16990", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_57977" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17087", @@ -65154,12 +65600,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17544", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_41609" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28976" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17544", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_28976" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_41609" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17608", "pred" : "is_a", @@ -65198,7 +65644,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17968", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18059", @@ -65242,7 +65688,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18237", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18282", @@ -65274,11 +65720,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18357", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_72587" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18357", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33571" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_20664", @@ -65360,6 +65806,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_27207" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28616" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -65376,6 +65826,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_23367", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24431" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_166902" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33571" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_72587" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_23449", "pred" : "is_a", @@ -65459,7 +65921,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_36342" + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15378" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33253" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", "pred" : "is_a", @@ -65490,7 +65956,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_36248" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24663", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", "obj" : "http://purl.obolibrary.org/obo/CHEBI_36238" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24828", @@ -65532,10 +65998,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_24866", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_22563" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_24866", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_36916" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24867", "pred" : "is_a", @@ -65592,6 +66054,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_35757" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65648,6 +66114,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_26820" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_58958" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65694,7 +66164,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26167", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_62031" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26607", @@ -65706,7 +66176,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26666", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_58951" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26708", @@ -65788,6 +66258,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35223" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_45696" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65864,6 +66338,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_13941" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65900,6 +66378,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_350546" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16765" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -65918,7 +66404,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35757" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28868", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", @@ -65948,6 +66434,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65974,7 +66464,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28976", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17544" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", @@ -65984,6 +66474,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35406" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66020,6 +66514,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_79389" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29340" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66036,6 +66538,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_79388" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29337" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66044,6 +66550,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33693" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15379" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66066,15 +66576,15 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", @@ -66082,15 +66592,15 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", @@ -66102,7 +66612,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", @@ -66114,11 +66624,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_59814" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", @@ -66126,11 +66636,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", @@ -66144,6 +66654,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66162,12 +66676,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30566", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16865" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30566", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_16865" + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30772", "pred" : "is_a", @@ -66186,7 +66700,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_84087" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30772", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_3098", @@ -66220,6 +66734,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37577" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24833" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -66248,6 +66766,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24433" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64769" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64775" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66264,14 +66790,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24431" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_10545" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33252" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33238" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33260" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33252", "pred" : "is_a", @@ -66296,6 +66826,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33259", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_23367" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24835" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33259" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33608" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33262", "pred" : "is_a", @@ -66432,6 +66974,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66466,7 +67012,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76967" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33569", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_166902" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33570", @@ -66478,7 +67024,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33569" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33571", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_234420" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33571", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_18357" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", @@ -66496,6 +67046,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_46883" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66524,10 +67078,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33608", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33674" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33608", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_49637" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33635", "pred" : "is_a", @@ -66568,10 +67118,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33674", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33579" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33674", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_33559" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33675", "pred" : "is_a", @@ -66648,6 +67194,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33702" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66656,6 +67206,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33719" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33558" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_78608" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66674,12 +67236,24 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_83820" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33707", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_71666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33247" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_58942" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64898" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66700,6 +67274,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50047" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33703" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66712,6 +67294,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -66720,6 +67306,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33703" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66732,6 +67322,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33721" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66740,6 +67334,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33720" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66824,6 +67422,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28790" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66868,6 +67470,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_51143" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28938" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", @@ -66910,7 +67516,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_25384" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35366", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35381", @@ -67006,7 +67612,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35692", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35693" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35693", @@ -67014,7 +67620,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35693", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35692" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35701", @@ -67044,6 +67650,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25384" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67070,7 +67680,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35341" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36078", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35519" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36080", @@ -67122,7 +67732,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_36278" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36248", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", "obj" : "http://purl.obolibrary.org/obo/CHEBI_20664" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36277", @@ -67276,6 +67886,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35352" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67336,6 +67950,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33424" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_26836" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67344,6 +67962,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_22221" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -67450,7 +68072,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_59202" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_39418", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_58954" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_41609", @@ -67458,7 +68080,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35604" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_41609", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17544" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_4167", @@ -67496,6 +68118,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33482" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_26836" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16189" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67524,6 +68154,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33308" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67538,7 +68172,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_64709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_47891", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50160" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_48154", @@ -67592,6 +68226,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_39142" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", @@ -67602,7 +68240,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50160", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_47891" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50297", @@ -67664,6 +68302,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50047" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_65296" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67764,6 +68406,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16765" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67782,12 +68428,16 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_57977", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16990" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_64769" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67798,7 +68448,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58951", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_26666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58953", @@ -67810,7 +68460,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_58953" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58954", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_39418" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", @@ -67820,6 +68470,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33482" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25704" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16189" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67834,7 +68492,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59202", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59203" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59203", @@ -67842,7 +68500,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59203", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59202" }, { "sub" : 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"http://purl.obolibrary.org/obo/GO_0014874" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0014878", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0051602" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0014879", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0014878" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0014879", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050981" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0014887", "pred" : "is_a", @@ -86088,6 +86914,18 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0015075", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24867" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015078", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0008324" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015078", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_1902600" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015078", + "pred" : "http://purl.obolibrary.org/obo/RO_0004009", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15378" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0015081", "pred" : "is_a", @@ -100716,10 +101554,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0050942", "pred" : "http://purl.obolibrary.org/obo/RO_0002213", "obj" : "http://purl.obolibrary.org/obo/GO_0050931" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050952", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0007600" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0050953", "pred" : "is_a", @@ -100728,10 +101562,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0050954", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0007600" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050956", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050952" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0050962", "pred" : "is_a", @@ -100744,34 +101574,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0050962", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0050953" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050963", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050906" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050963", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050981" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050963", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0050952" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050964", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050963" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050964", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/GO_0050956" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050967", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0050963" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050967", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0062149" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0050968", "pred" : "is_a", @@ -100784,14 +101586,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0050975", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0050954" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0009582" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0050981", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0051602" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0050994", "pred" : "is_a", @@ -101696,10 +102490,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0051590", "pred" : "http://purl.obolibrary.org/obo/RO_0002213", "obj" : "http://purl.obolibrary.org/obo/GO_0006836" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051602", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0009628" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051606", "pred" : "is_a", @@ -110756,6 +111546,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0120025", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/GO_0098590" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0120029", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0140115" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0120029", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_1902600" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0120031", "pred" : "is_a", @@ -114088,6 +114886,18 @@ "sub" : "http://purl.obolibrary.org/obo/GO_1902570", "pred" : "http://purl.obolibrary.org/obo/RO_0002339", "obj" : "http://purl.obolibrary.org/obo/GO_0005730" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_1902600", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0098655" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_1902600", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0098662" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_1902600", + "pred" : "http://purl.obolibrary.org/obo/RO_0004009", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15378" }, { "sub" : "http://purl.obolibrary.org/obo/GO_1902679", "pred" : "is_a", @@ -121504,6 +122314,14 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_1206795", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2697495" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_1224", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_3379134" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_1236", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_1224" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_124129", "pred" : "is_a", @@ -121524,6 +122342,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_1312402", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33213" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_131567", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/COB_0000022" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_131567", "pred" : "is_a", @@ -121672,10 +122494,6 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_2743711", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2743709" - }, { - "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_2759", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/COB_0000022" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_2759", "pred" : "is_a", @@ -121816,6 +122634,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_3378", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_1445966" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_3379134", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_2" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_3398", "pred" : "is_a", @@ -121956,6 +122778,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_50557", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6960" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_543", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_91347" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_554915", "pred" : "is_a", @@ -121968,6 +122794,14 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_55885", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_6243" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_561", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_543" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_562", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_561" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_5782", "pred" : "is_a", @@ -122028,6 +122862,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_6362", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_105391" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_637912", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_562" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_6656", "pred" : "is_a", @@ -122240,6 +123078,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_89593", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_7711" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_91347", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_1236" }, { "sub" : "http://purl.obolibrary.org/obo/NCBITaxon_9254", "pred" : "is_a", @@ -122308,10 +123150,26 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C14376", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C14250" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C16203", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C43431" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C16847", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C43431" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C16853", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C17369" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C16853", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C74957" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C16856", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C17995" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C17187", "pred" : "is_a", @@ -122320,6 +123178,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C172272", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C25284" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C17369", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C25218" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C179817", "pred" : "is_a", @@ -122328,6 +123190,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C179817", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C70766" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C17995", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C16853" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C18141", "pred" : "is_a", @@ -122380,6 +123246,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C25206", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C25447" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C25218", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C16203" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C25284", "pred" : "is_a", @@ -122388,6 +123258,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C25285", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C70766" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C25294", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C25218" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C25335", "pred" : "is_a", @@ -122480,6 +123354,10 @@ "sub" : "http://purl.obolibrary.org/obo/NCIT_C73706", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/NCIT_C41009" + }, { + "sub" : "http://purl.obolibrary.org/obo/NCIT_C74957", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/NCIT_C25294" }, { "sub" : "http://purl.obolibrary.org/obo/NCIT_C85776", "pred" : "is_a", @@ -124485,9 +125363,9 @@ "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000000", + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000001", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000003" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000005", "pred" : "is_a", @@ -125240,6 +126118,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000102", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002048" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -125248,6 +126130,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "http://purl.obolibrary.org/obo/RO_0002230", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "is_a", @@ -125600,10 +126486,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004921" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001155" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -126147,7 +127029,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000463", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000463", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -126220,6 +127102,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000475", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000468" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000476", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000476", "pred" : "is_a", @@ -139264,10 +140150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0013522" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001555" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -140151,7 +141033,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005423", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005423", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", @@ -141260,10 +142142,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0006071" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -141272,10 +142150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000075" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001130" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -144336,10 +145210,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0006077" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0002100" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -146140,14 +147010,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0010499", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0010498" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000020" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0050964" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0010522", "pred" : "is_a", @@ -147916,10 +148778,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000064" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000025" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -150495,7 +151353,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0036215", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0036215", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", @@ -151388,6 +152246,14 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_8600140", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001052" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0001278" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_8410050" }, { "sub" : "http://purl.obolibrary.org/obo/UO_0000001", "pred" : "is_a", @@ -154112,6 +154978,34 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018033", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018034", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018036", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018037", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018038", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018039", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018040", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0019000", "pred" : "subPropertyOf", @@ -154188,6 +155082,10 @@ "sub" : "http://purl.obolibrary.org/obo/uberon/core#proximally_connected_to", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/uberon/core#transitively_proximally_connected_to" + }, { + "sub" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" }, { "sub" : "http://purl.obolibrary.org/obo/BFO_0000050", "pred" : "inverseOf", @@ -154400,6 +155298,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0003001" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018033", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018034" }, { "sub" : "http://purl.obolibrary.org/obo/uberon/core#distally_connected_to", "pred" : "inverseOf", @@ -162425,6 +163327,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000365" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010155", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_1902600" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010160", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048859" ], @@ -163670,20 +164579,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014878", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0051602" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014879", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014887", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0043500" ], @@ -163768,6 +164663,16 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24867" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015078", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005215" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002342", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015081", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -171991,27 +172896,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007600" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050963", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0007600" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050964", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0050956" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050967", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0019233" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050968", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009593" ], @@ -178465,6 +179349,22 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0098590" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120029", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002338", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005829" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005576" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002342", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005886" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120031", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022607" ], @@ -180600,6 +181500,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005730" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902600", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0055085" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902679", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -193813,13 +194720,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000067" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0050964" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0010527", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0002558" ], @@ -196782,6 +197682,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001052" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000483" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_8410050" + } ] } ], "domainRangeAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", diff --git a/empty-full.obo b/empty-full.obo index aa703fb..3b9ca13 100644 --- a/empty-full.obo +++ b/empty-full.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: empty/releases/2026-02-23/empty-full.owl +data-version: empty/releases/2026-04-04/empty-full.owl idspace: dce http://purl.org/dc/elements/1.1/ idspace: dcterms http://purl.org/dc/terms/ idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# @@ -10,7 +10,7 @@ ontology: empty/empty-full property_value: dcterms:description "An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences." xsd:string property_value: dcterms:license https://creativecommons.org/licenses/by/4.0/ property_value: dcterms:title "Experimental Measurements Purposes and Treatments ontologY" xsd:string -property_value: owl:versionInfo "2026-02-23" xsd:string +property_value: owl:versionInfo "2026-04-04" xsd:string property_value: owl:versionInfo "Release 2025-07-10" xsd:string [Term] @@ -115,7 +115,7 @@ is_a: CHEBI:36338 ! lepton [Term] id: CHEBI:131604 name: Mycoplasma genitalium metabolite -def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] +def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] is_a: CHEBI:76969 ! bacterial metabolite [Term] @@ -131,11 +131,12 @@ def: "A carbohydrate acid derivative anion obtained by deprotonation of the carb is_a: CHEBI:61469 ! polyanionic polymer is_a: CHEBI:63551 ! carbohydrate acid derivative anion relationship: is_conjugate_base_of CHEBI:16336 ! hyaluronic acid +relationship: RO:0018033 CHEBI:16336 ! is deprotonated form of hyaluronic acid [Term] id: CHEBI:136889 name: 5beta steroid -def: "Any steroid that has beta-configuration at position 5." [] +def: "Any steroid that has β-configuration at position 5." [] is_a: CHEBI:35341 ! steroid [Term] @@ -147,7 +148,7 @@ is_a: CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:138366 name: bile acids -def: "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration." [] +def: "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5α-configuration." [] is_a: CHEBI:25384 ! monocarboxylic acid is_a: CHEBI:35350 ! hydroxy steroid is_a: CHEBI:36078 ! cholanoid @@ -163,29 +164,30 @@ id: CHEBI:13941 name: carbamate is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:28616 ! carbamic acid +relationship: RO:0018033 CHEBI:28616 ! is deprotonated form of carbamic acid [Term] id: CHEBI:140601 name: fatty acid 4:0 def: "Any saturated fatty acid containing 4 carbons." [] is_a: CHEBI:26666 ! short-chain fatty acid -relationship: is_conjugate_acid_of CHEBI:78115 ! fatty acid anion 4:0 +relationship: RO:0018034 CHEBI:78115 ! is protonated form of fatty acid anion 4:0 [Term] id: CHEBI:142163 name: 24G7 epitope -def: "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." [] +def: "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." [] is_a: CHEBI:24433 ! group relationship: RO:0000087 CHEBI:53000 ! has role epitope [Term] id: CHEBI:14321 name: glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_acid_of CHEBI:29987 ! glutamate(2-) -relationship: is_conjugate_base_of CHEBI:18237 ! glutamic acid relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018033 CHEBI:18237 ! is deprotonated form of glutamic acid +relationship: RO:0018034 CHEBI:29987 ! is protonated form of glutamate(2-) [Term] id: CHEBI:15339 @@ -216,6 +218,16 @@ relationship: RO:0000087 CHEBI:48356 ! has role protic solvent relationship: RO:0000087 CHEBI:64049 ! has role food acidity regulator relationship: RO:0000087 CHEBI:65256 ! has role antimicrobial food preservative relationship: RO:0000087 CHEBI:83056 ! has role Daphnia magna metabolite +relationship: RO:0018034 CHEBI:30089 ! is protonated form of acetate + +[Term] +id: CHEBI:15378 +name: hydron +def: "The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes)." [] +is_a: CHEBI:25414 ! monoatomic monocation +is_a: CHEBI:33251 ! monoatomic hydrogen +is_a: CHEBI:33252 ! atomic nucleus +is_a: CHEBI:60242 ! monovalent inorganic cation [Term] id: CHEBI:15379 @@ -231,20 +243,21 @@ relationship: RO:0000087 CHEBI:63248 ! has role oxidising agent relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite relationship: RO:0000087 CHEBI:77974 ! has role food packaging gas +relationship: RO:0018033 CHEBI:29793 ! is deprotonated form of hydridodioxygen(1+) [Term] id: CHEBI:15693 name: aldose -def: "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals." [] +def: "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n ≥ 2) and their intramolecular hemiacetals." [] is_a: CHEBI:35381 ! monosaccharide [Term] id: CHEBI:15705 name: L-alpha-amino acid -def: "Any alpha-amino acid having L-configuration at the alpha-carbon." [] +def: "Any α-amino acid having L-configuration at the α-carbon." [] is_a: CHEBI:33704 ! alpha-amino acid -relationship: is_conjugate_acid_of CHEBI:59814 ! L-alpha-amino acid anion -relationship: is_tautomer_of CHEBI:59869 ! L-alpha-amino acid zwitterion +relationship: RO:0018034 CHEBI:59814 ! is protonated form of L-alpha-amino acid anion +relationship: RO:0018036 CHEBI:59869 ! is tautomer of L-alpha-amino acid zwitterion [Term] id: CHEBI:15841 @@ -255,13 +268,13 @@ is_a: CHEBI:16670 ! peptide [Term] id: CHEBI:15966 name: D-glutamic acid -def: "An optically active form of glutamic acid having D-configuration." [] +def: "An optically active form of glutamic acid having D-configuration." [] is_a: CHEBI:16733 ! D-alpha-amino acid is_a: CHEBI:18237 ! glutamic acid -relationship: is_conjugate_acid_of CHEBI:29986 ! D-glutamate(1-) -relationship: is_enantiomer_of CHEBI:16015 ! L-glutamic acid relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:29986 ! is protonated form of D-glutamate(1-) +relationship: RO:0018039 CHEBI:16015 ! is enantiomer of L-glutamic acid [Term] id: CHEBI:15986 @@ -274,17 +287,17 @@ relationship: BFO:0000051 CHEBI:50319 ! has part nucleotide residue [Term] id: CHEBI:16015 name: L-glutamic acid -def: "An optically active form of glutamic acid having L-configuration." [] +def: "An optically active form of glutamic acid having L-configuration." [] is_a: CHEBI:18237 ! glutamic acid is_a: CHEBI:24318 ! glutamine family amino acid -relationship: is_conjugate_acid_of CHEBI:29985 ! L-glutamate(1-) -relationship: is_enantiomer_of CHEBI:15966 ! D-glutamic acid relationship: RO:0000087 CHEBI:173085 ! has role ferroptosis inducer relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:27027 ! has role micronutrient relationship: RO:0000087 CHEBI:50733 ! has role nutraceutical relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:29985 ! is protonated form of L-glutamate(1-) +relationship: RO:0018039 CHEBI:15966 ! is enantiomer of D-glutamic acid [Term] id: CHEBI:16134 @@ -301,6 +314,8 @@ relationship: RO:0000087 CHEBI:59740 ! has role nucleophilic reagent relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77941 ! has role EC 3.5.1.4 (amidase) inhibitor relationship: RO:0000087 CHEBI:78433 ! has role refrigerant +relationship: RO:0018033 CHEBI:28938 ! is deprotonated form of ammonium +relationship: RO:0018034 CHEBI:29337 ! is protonated form of azanide [Term] id: CHEBI:16189 @@ -313,15 +328,17 @@ relationship: is_conjugate_base_of CHEBI:45696 ! hydrogensulfate relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:45696 ! is deprotonated form of hydrogensulfate [Term] id: CHEBI:16336 name: hyaluronic acid -def: "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells." [] +def: "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells." [] is_a: CHEBI:37395 ! mucopolysaccharide is_a: CHEBI:72813 ! exopolysaccharide relationship: is_conjugate_acid_of CHEBI:132153 ! hyaluronate relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:132153 ! is protonated form of hyaluronate [Term] id: CHEBI:16541 @@ -333,7 +350,7 @@ relationship: BFO:0000051 CHEBI:33700 ! has part proteinogenic amino-acid residu [Term] id: CHEBI:16646 name: carbohydrate -def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] +def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] @@ -345,25 +362,27 @@ is_a: CHEBI:37622 ! carboxamide is_a: CHEBI:50047 ! organic amino compound relationship: BFO:0000051 CHEBI:33708 ! has part amino-acid residue relationship: is_tautomer_of CHEBI:60466 ! peptide zwitterion +relationship: RO:0018036 CHEBI:60466 ! is tautomer of peptide zwitterion [Term] id: CHEBI:166902 name: noradrenaline(1+) +def: "An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative -relationship: is_conjugate_acid_of CHEBI:33569 ! noradrenaline +relationship: RO:0018034 CHEBI:33569 ! is protonated form of noradrenaline [Term] id: CHEBI:16733 name: D-alpha-amino acid is_a: CHEBI:83925 ! non-proteinogenic alpha-amino acid -relationship: is_conjugate_acid_of CHEBI:60895 ! D-alpha-amino acid anion -relationship: is_tautomer_of CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: RO:0018034 CHEBI:60895 ! is protonated form of D-alpha-amino acid anion +relationship: RO:0018036 CHEBI:59871 ! is tautomer of D-alpha-amino acid zwitterion [Term] id: CHEBI:167559 name: glycan -def: "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001." [] +def: "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] @@ -378,20 +397,21 @@ relationship: is_conjugate_base_of CHEBI:57887 ! tryptaminium relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76924 ! has role plant metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:57887 ! is deprotonated form of tryptaminium [Term] id: CHEBI:16865 name: gamma-aminobutyric acid -def: "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4." [] +def: "A γ-amino acid that is butanoic acid with the amino substituent located at C-4." [] is_a: CHEBI:25384 ! monocarboxylic acid is_a: CHEBI:33707 ! gamma-amino acid -relationship: has_functional_parent CHEBI:30772 ! butyric acid -relationship: is_conjugate_acid_of CHEBI:30566 ! gamma-aminobutyrate -relationship: is_tautomer_of CHEBI:59888 ! gamma-aminobutyric acid zwitterion relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:62488 ! has role signalling molecule relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:30566 ! is protonated form of gamma-aminobutyrate +relationship: RO:0018036 CHEBI:59888 ! is tautomer of gamma-aminobutyric acid zwitterion +relationship: RO:0018038 CHEBI:30772 ! has functional parent butyric acid [Term] id: CHEBI:16990 @@ -400,15 +420,15 @@ def: "A member of the class of biladienes that is a linear tetrapyrrole with th is_a: CHEBI:35692 ! dicarboxylic acid is_a: CHEBI:36735 ! biladienes relationship: BFO:0000051 CHEBI:142163 ! has part 24G7 epitope -relationship: is_conjugate_acid_of CHEBI:57977 ! bilirubin(2-) relationship: RO:0000087 CHEBI:22586 ! has role antioxidant relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:57977 ! is protonated form of bilirubin(2-) [Term] id: CHEBI:17087 name: ketone -def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] +def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] is_a: CHEBI:36586 ! carbonyl compound [Term] @@ -436,25 +456,25 @@ id: CHEBI:17544 name: hydrogencarbonate def: "The carbon oxoanion resulting from the removal of a proton from carbonic acid." [] is_a: CHEBI:35604 ! carbon oxoanion -relationship: is_conjugate_acid_of CHEBI:41609 ! carbonate -relationship: is_conjugate_base_of CHEBI:28976 ! carbonic acid relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:28976 ! is deprotonated form of carbonic acid +relationship: RO:0018034 CHEBI:41609 ! is protonated form of carbonate [Term] id: CHEBI:17608 name: D-aldohexose -def: "Any D-aldose having a chain of six carbon atoms in the molecule." [] +def: "Any D-aldose having a chain of six carbon atoms in the molecule." [] is_a: CHEBI:33917 ! aldohexose is_a: CHEBI:4194 ! D-hexose [Term] id: CHEBI:17634 name: D-glucose -def: "A glucose with D-configuration." [] +def: "A glucose with D-configuration." [] is_a: CHEBI:17234 ! glucose is_a: CHEBI:17608 ! D-aldohexose @@ -475,9 +495,9 @@ id: CHEBI:17968 name: butyrate def: "A short-chain fatty acid anion that is the conjugate base of butyric acid, obtained by deprotonation of the carboxy group." [] is_a: CHEBI:78115 ! fatty acid anion 4:0 -relationship: is_conjugate_base_of CHEBI:30772 ! butyric acid relationship: RO:0000087 CHEBI:61115 ! has role EC 3.5.1.98 (histone deacetylase) inhibitor relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:30772 ! is deprotonated form of butyric acid [Term] id: CHEBI:18059 @@ -508,12 +528,12 @@ is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:18237 name: glutamic acid -def: "An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2." [] +def: "An α-amino acid that is glutaric acid bearing a single amino substituent at position 2." [] is_a: CHEBI:26167 ! polar amino acid is_a: CHEBI:33704 ! alpha-amino acid relationship: BFO:0000051 CHEBI:50329 ! has part 2-carboxyethyl group -relationship: is_conjugate_acid_of CHEBI:14321 ! glutamate(1-) relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018034 CHEBI:14321 ! is protonated form of glutamate(1-) [Term] id: CHEBI:18282 @@ -524,15 +544,15 @@ is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:18357 name: (R)-noradrenaline -def: "The R-enantiomer of noradrenaline." [] +def: "The R-enantiomer of noradrenaline." [] is_a: CHEBI:33569 ! noradrenaline -relationship: is_conjugate_base_of CHEBI:72587 ! (R)-noradrenaline(1+) -relationship: is_enantiomer_of CHEBI:33571 ! (S)-noradrenaline relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:35524 ! has role sympathomimetic agent relationship: RO:0000087 CHEBI:35569 ! has role alpha-adrenergic agonist relationship: RO:0000087 CHEBI:50514 ! has role vasoconstrictor agent relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0018033 CHEBI:72587 ! is deprotonated form of (R)-noradrenaline(1+) +relationship: RO:0018039 CHEBI:33571 ! is enantiomer of (S)-noradrenaline [Term] id: CHEBI:20664 @@ -542,7 +562,7 @@ is_a: CHEBI:35519 ! cholane [Term] id: CHEBI:22221 name: acyl group -def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] +def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l ≠ 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] is_a: CHEBI:33247 ! organic group [Term] @@ -610,6 +630,7 @@ name: carbamoyl group def: "The univalent carboacyl group formed by loss of -OH from the carboxy group of carbamic acid." [] is_a: CHEBI:27207 ! univalent carboacyl group relationship: is_substituent_group_from CHEBI:28616 ! carbamic acid +relationship: RO:0018037 CHEBI:28616 ! is substitutent group from carbamic acid [Term] id: CHEBI:23019 @@ -628,6 +649,14 @@ name: molecular entity def: "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." [] is_a: CHEBI:24431 ! chemical entity +[Term] +id: CHEBI:234420 +name: (S)-noradrenaline(1+) +def: "An organic cation that is the conjugate acid of (S)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] +is_a: CHEBI:166902 ! noradrenaline(1+) +relationship: RO:0018034 CHEBI:33571 ! is protonated form of (S)-noradrenaline +relationship: RO:0018039 CHEBI:72587 ! is enantiomer of (R)-noradrenaline(1+) + [Term] id: CHEBI:23449 name: cyclic peptide @@ -655,14 +684,14 @@ is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:24318 name: glutamine family amino acid -def: "An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." [] +def: "An L-α-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." [] is_a: CHEBI:15705 ! L-alpha-amino acid is_a: CHEBI:83813 ! proteinogenic amino acid [Term] id: CHEBI:24319 name: EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor -def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." [] +def: "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2)." [] is_a: CHEBI:76823 ! EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor [Term] @@ -714,7 +743,8 @@ is_a: CHEBI:48705 ! agonist id: CHEBI:24636 name: proton def: "Nuclear particle of charge number +1, spin 1/2 and rest mass of 1.007276470(12) u." [] -is_a: CHEBI:36342 ! subatomic particle +is_a: CHEBI:15378 ! hydron +is_a: CHEBI:33253 ! nucleon is_a: COB:0000013 ! molecule [Term] @@ -729,10 +759,10 @@ relationship: BFO:0000051 CHEBI:43176 ! has part hydroxy group [Term] id: CHEBI:24663 name: hydroxy-5beta-cholanic acid -def: "Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position." [] +def: "Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position." [] is_a: CHEBI:33822 ! organic hydroxy compound is_a: CHEBI:36248 ! 5beta-cholanic acids -relationship: has_functional_parent CHEBI:36238 ! 5beta-cholanic acid +relationship: RO:0018038 CHEBI:36238 ! has functional parent 5beta-cholanic acid [Term] id: CHEBI:24828 @@ -771,7 +801,6 @@ name: salt def: "A salt is an assembly of cations and anions." [] is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: BFO:0000051 CHEBI:22563 ! has part anion -relationship: BFO:0000051 CHEBI:36916 ! has part cation [Term] id: CHEBI:24867 @@ -833,6 +862,7 @@ name: monocarboxylic acid def: "An oxoacid containing a single carboxy group." [] is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:35757 ! monocarboxylic acid anion +relationship: RO:0018034 CHEBI:35757 ! is protonated form of monocarboxylic acid anion [Term] id: CHEBI:25414 @@ -883,6 +913,7 @@ name: organic sulfate def: "Compounds of the general formula SO3HOR where R is an organyl group" [] is_a: CHEBI:26820 ! sulfates relationship: is_conjugate_acid_of CHEBI:58958 ! organosulfate oxoanion +relationship: RO:0018034 CHEBI:58958 ! is protonated form of organosulfate oxoanion [Term] id: CHEBI:25741 @@ -916,7 +947,7 @@ id: CHEBI:26167 name: polar amino acid def: "Any amino acid whose side chain is capable of forming one or more hydrogen bonds." [] is_a: CHEBI:33709 ! amino acid -relationship: is_tautomer_of CHEBI:62031 ! polar amino acid zwitterion +relationship: RO:0018036 CHEBI:62031 ! is tautomer of polar amino acid zwitterion [Term] id: CHEBI:26607 @@ -927,9 +958,9 @@ is_a: CHEBI:35366 ! fatty acid [Term] id: CHEBI:26666 name: short-chain fatty acid -def: "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." [] +def: "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." [] is_a: CHEBI:35366 ! fatty acid -relationship: is_conjugate_acid_of CHEBI:58951 ! short-chain fatty acid anion +relationship: RO:0018034 CHEBI:58951 ! is protonated form of short-chain fatty acid anion [Term] id: CHEBI:26708 @@ -992,6 +1023,7 @@ def: "A sulfur oxoacid that consists of two oxo and two hydroxy groups joined co is_a: CHEBI:33402 ! sulfur oxoacid relationship: is_conjugate_acid_of CHEBI:45696 ! hydrogensulfate relationship: RO:0000087 CHEBI:35223 ! has role catalyst +relationship: RO:0018034 CHEBI:45696 ! is protonated form of hydrogensulfate [Term] id: CHEBI:26932 @@ -1040,7 +1072,7 @@ relationship: RO:0000087 CHEBI:33937 ! has role macronutrient [Term] id: CHEBI:28087 name: glycogen -def: "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." [] +def: "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." [] is_a: CHEBI:24384 ! glycogens relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite @@ -1054,6 +1086,7 @@ is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:64708 ! one-carbon compound relationship: is_conjugate_acid_of CHEBI:13941 ! carbamate relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:13941 ! is protonated form of carbamate [Term] id: CHEBI:28790 @@ -1069,6 +1102,8 @@ relationship: is_conjugate_base_of CHEBI:350546 ! serotonin(1+) relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:350546 ! is deprotonated form of serotonin(1+) +relationship: RO:0018038 CHEBI:16765 ! has functional parent tryptamine [Term] id: CHEBI:28868 @@ -1076,7 +1111,7 @@ name: fatty acid anion def: "The conjugate base of a fatty acid, arising from deprotonation of the carboxylic acid group of the corresponding fatty acid." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:35757 ! monocarboxylic acid anion -relationship: is_conjugate_base_of CHEBI:35366 ! fatty acid +relationship: RO:0018033 CHEBI:35366 ! is deprotonated form of fatty acid [Term] id: CHEBI:28938 @@ -1090,6 +1125,7 @@ relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:16134 ! is protonated form of ammonia [Term] id: CHEBI:28965 @@ -1103,8 +1139,8 @@ id: CHEBI:28976 name: carbonic acid is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:36961 ! chalcocarbonic acid -relationship: is_conjugate_acid_of CHEBI:17544 ! hydrogencarbonate relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0018034 CHEBI:17544 ! is protonated form of hydrogencarbonate [Term] id: CHEBI:29067 @@ -1113,6 +1149,7 @@ def: "The conjugate base formed when the carboxy group of a carboxylic acid is d is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion relationship: is_conjugate_base_of CHEBI:33575 ! carboxylic acid +relationship: RO:0018033 CHEBI:33575 ! is deprotonated form of carboxylic acid [Term] id: CHEBI:29101 @@ -1132,6 +1169,8 @@ is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:29340 ! hydridonitrate(2-) relationship: is_conjugate_base_of CHEBI:16134 ! ammonia +relationship: RO:0018033 CHEBI:16134 ! is deprotonated form of ammonia +relationship: RO:0018034 CHEBI:29340 ! is protonated form of hydridonitrate(2-) [Term] id: CHEBI:29340 @@ -1140,57 +1179,59 @@ def: "A divalent inorganic anion resulting from the removal of two protons from is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79388 ! divalent inorganic anion relationship: is_conjugate_base_of CHEBI:29337 ! azanide +relationship: RO:0018033 CHEBI:29337 ! is deprotonated form of azanide [Term] id: CHEBI:29793 name: hydridodioxygen(1+) is_a: CHEBI:33693 ! oxygen hydride relationship: is_conjugate_acid_of CHEBI:15379 ! dioxygen +relationship: RO:0018034 CHEBI:15379 ! is protonated form of dioxygen [Term] id: CHEBI:29985 name: L-glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:14321 ! glutamate(1-) -relationship: is_conjugate_acid_of CHEBI:29988 ! L-glutamate(2-) -relationship: is_conjugate_base_of CHEBI:16015 ! L-glutamic acid -relationship: is_enantiomer_of CHEBI:29986 ! D-glutamate(1-) relationship: RO:0000087 CHEBI:24319 ! has role EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16015 ! is deprotonated form of L-glutamic acid +relationship: RO:0018034 CHEBI:29988 ! is protonated form of L-glutamate(2-) +relationship: RO:0018039 CHEBI:29986 ! is enantiomer of D-glutamate(1-) [Term] id: CHEBI:29986 name: D-glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:14321 ! glutamate(1-) -relationship: is_conjugate_acid_of CHEBI:29989 ! D-glutamate(2-) -relationship: is_conjugate_base_of CHEBI:15966 ! D-glutamic acid -relationship: is_enantiomer_of CHEBI:29985 ! L-glutamate(1-) +relationship: RO:0018033 CHEBI:15966 ! is deprotonated form of D-glutamic acid +relationship: RO:0018034 CHEBI:29989 ! is protonated form of D-glutamate(2-) +relationship: RO:0018039 CHEBI:29985 ! is enantiomer of L-glutamate(1-) [Term] id: CHEBI:29987 name: glutamate(2-) -def: "A dicarboxylic acid dianion that is the conjugate base of glutamate(1-)." [] +def: "A dicarboxylic acid dianion that is the conjugate base of glutamate(1−)." [] is_a: CHEBI:28965 ! dicarboxylic acid dianion -relationship: is_conjugate_base_of CHEBI:14321 ! glutamate(1-) relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018033 CHEBI:14321 ! is deprotonated form of glutamate(1-) [Term] id: CHEBI:29988 name: L-glutamate(2-) -def: "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." [] +def: "An L-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." [] is_a: CHEBI:29987 ! glutamate(2-) is_a: CHEBI:59814 ! L-alpha-amino acid anion -relationship: is_conjugate_base_of CHEBI:29985 ! L-glutamate(1-) -relationship: is_enantiomer_of CHEBI:29989 ! D-glutamate(2-) +relationship: RO:0018033 CHEBI:29985 ! is deprotonated form of L-glutamate(1-) +relationship: RO:0018039 CHEBI:29989 ! is enantiomer of D-glutamate(2-) [Term] id: CHEBI:29989 name: D-glutamate(2-) is_a: CHEBI:29987 ! glutamate(2-) -relationship: is_conjugate_base_of CHEBI:29986 ! D-glutamate(1-) -relationship: is_enantiomer_of CHEBI:29988 ! L-glutamate(2-) +relationship: RO:0018033 CHEBI:29986 ! is deprotonated form of D-glutamate(1-) +relationship: RO:0018039 CHEBI:29988 ! is enantiomer of L-glutamate(2-) [Term] id: CHEBI:30089 @@ -1200,21 +1241,22 @@ is_a: CHEBI:35757 ! monocarboxylic acid anion relationship: is_conjugate_base_of CHEBI:15366 ! acetic acid relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:15366 ! is deprotonated form of acetic acid [Term] id: CHEBI:30212 name: photon -def: "Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force." [] +def: "Particle of zero charge, zero rest mass, spin quantum number 1, energy hν and momentum hν/c (h is the Planck constant, ν the frequency of radiation and c the speed of light), carrier of electromagnetic force." [] is_a: CHEBI:36341 ! boson [Term] id: CHEBI:30566 name: gamma-aminobutyrate -def: "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid." [] +def: "An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid." [] is_a: CHEBI:71666 ! gamma-amino acid anion -relationship: has_functional_parent CHEBI:17968 ! butyrate -relationship: is_conjugate_base_of CHEBI:16865 ! gamma-aminobutyric acid relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16865 ! is deprotonated form of gamma-aminobutyric acid +relationship: RO:0018038 CHEBI:17968 ! has functional parent butyrate [Term] id: CHEBI:30772 @@ -1222,14 +1264,14 @@ name: butyric acid def: "A straight-chain saturated fatty acid that is butane in which one of the terminal methyl groups has been oxidised to a carboxy group." [] is_a: CHEBI:140601 ! fatty acid 4:0 is_a: CHEBI:39418 ! straight-chain saturated fatty acid -relationship: is_conjugate_acid_of CHEBI:17968 ! butyrate relationship: RO:0000087 CHEBI:131604 ! has role Mycoplasma genitalium metabolite relationship: RO:0000087 CHEBI:84087 ! has role human urinary metabolite +relationship: RO:0018034 CHEBI:17968 ! is protonated form of butyrate [Term] id: CHEBI:3098 name: bile acid -def: "Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration." [] +def: "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration." [] is_a: CHEBI:138366 ! bile acids is_a: CHEBI:24663 ! hydroxy-5beta-cholanic acid @@ -1242,7 +1284,7 @@ is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:32988 name: amide -def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] +def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] is_a: CHEBI:51143 ! nitrogen molecular entity [Term] @@ -1268,6 +1310,7 @@ id: CHEBI:33241 name: oxoacid derivative is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_functional_parent CHEBI:24833 ! oxoacid +relationship: RO:0018038 CHEBI:24833 ! has functional parent oxoacid [Term] id: CHEBI:33242 @@ -1295,6 +1338,8 @@ def: "Any substituent group or skeleton containing carbon." [] is_a: CHEBI:24433 ! group relationship: is_conjugate_acid_of CHEBI:64775 ! organic anionic group relationship: is_conjugate_base_of CHEBI:64769 ! organic cationic group +relationship: RO:0018033 CHEBI:64769 ! is deprotonated form of organic cationic group +relationship: RO:0018034 CHEBI:64775 ! is protonated form of organic anionic group [Term] id: CHEBI:33249 @@ -1307,9 +1352,14 @@ id: CHEBI:33250 name: atom def: "A chemical entity constituting the smallest component of an element having the chemical properties of the element." [] is_a: CHEBI:24431 ! chemical entity -relationship: BFO:0000051 CHEBI:10545 ! has part electron relationship: BFO:0000051 CHEBI:33252 ! has part atomic nucleus +[Term] +id: CHEBI:33251 +name: monoatomic hydrogen +is_a: CHEBI:33238 ! monoatomic entity +is_a: CHEBI:33260 ! elemental hydrogen + [Term] id: CHEBI:33252 name: atomic nucleus @@ -1327,7 +1377,7 @@ is_a: CHEBI:36347 ! nuclear particle [Term] id: CHEBI:33256 name: primary amide -def: "A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] +def: "A derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] is_a: CHEBI:32988 ! amide [Term] @@ -1336,6 +1386,13 @@ name: elemental molecular entity def: "A molecular entity all atoms of which have the same atomic number." [] is_a: CHEBI:23367 ! molecular entity +[Term] +id: CHEBI:33260 +name: elemental hydrogen +is_a: CHEBI:24835 ! inorganic molecular entity +is_a: CHEBI:33259 ! elemental molecular entity +is_a: CHEBI:33608 ! hydrogen molecular entity + [Term] id: CHEBI:33262 name: elemental oxygen @@ -1475,6 +1532,7 @@ name: alpha-amino-acid anion def: "An amino-acid anion obtained by deprotonation of any alpha-amino acid." [] is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018033 CHEBI:33704 ! is deprotonated form of alpha-amino acid [Term] id: CHEBI:33559 @@ -1490,7 +1548,7 @@ is_a: CHEBI:33318 ! main group element atom [Term] id: CHEBI:33566 name: catechols -def: "Any compound containing an o-diphenol component." [] +def: "Any compound containing an o-diphenol component." [] is_a: CHEBI:33570 ! benzenediols [Term] @@ -1505,8 +1563,8 @@ id: CHEBI:33569 name: noradrenaline def: "A catecholamine in which C-1 of the aminoethyl side-chain is hydroxy-substituted." [] is_a: CHEBI:33567 ! catecholamine -relationship: is_conjugate_base_of CHEBI:166902 ! noradrenaline(1+) relationship: RO:0000087 CHEBI:76967 ! has role human xenobiotic metabolite +relationship: RO:0018033 CHEBI:166902 ! is deprotonated form of noradrenaline(1+) [Term] id: CHEBI:33570 @@ -1516,9 +1574,10 @@ is_a: CHEBI:33853 ! phenols [Term] id: CHEBI:33571 name: (S)-noradrenaline -def: "The S-enantiomer of noradrenaline." [] +def: "The S-enantiomer of noradrenaline." [] is_a: CHEBI:33569 ! noradrenaline -relationship: is_enantiomer_of CHEBI:18357 ! (R)-noradrenaline +relationship: RO:0018033 CHEBI:234420 ! is deprotonated form of (S)-noradrenaline(1+) +relationship: RO:0018039 CHEBI:18357 ! is enantiomer of (R)-noradrenaline [Term] id: CHEBI:33575 @@ -1529,6 +1588,7 @@ is_a: CHEBI:36586 ! carbonyl compound is_a: CHEBI:64709 ! organic acid relationship: BFO:0000051 CHEBI:46883 ! has part carboxy group relationship: is_conjugate_acid_of CHEBI:29067 ! carboxylic acid anion +relationship: RO:0018034 CHEBI:29067 ! is protonated form of carboxylic acid anion [Term] id: CHEBI:33579 @@ -1553,7 +1613,6 @@ is_a: CHEBI:25367 ! molecule id: CHEBI:33608 name: hydrogen molecular entity is_a: CHEBI:33674 ! s-block molecular entity -relationship: BFO:0000051 CHEBI:49637 ! has part hydrogen atom [Term] id: CHEBI:33635 @@ -1597,7 +1656,6 @@ id: CHEBI:33674 name: s-block molecular entity def: "An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element." [] is_a: CHEBI:33579 ! main group molecular entity -relationship: BFO:0000051 CHEBI:33559 ! has part s-block element atom [Term] id: CHEBI:33675 @@ -1633,7 +1691,7 @@ is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:33696 name: nucleic acid -def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] +def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] is_a: CHEBI:15986 ! polynucleotide relationship: BFO:0000051 CHEBI:33791 ! has part canonical nucleoside residue relationship: BFO:0000051 CHEBI:50297 ! has part canonical nucleotide residue @@ -1664,6 +1722,7 @@ name: amino-acid cation is_a: CHEBI:25697 ! organic cation is_a: CHEBI:33702 ! polyatomic cation relationship: is_conjugate_acid_of CHEBI:33709 ! amino acid +relationship: RO:0018034 CHEBI:33709 ! is protonated form of amino acid [Term] id: CHEBI:33704 @@ -1673,13 +1732,16 @@ is_a: CHEBI:33709 ! amino acid relationship: is_conjugate_acid_of CHEBI:33558 ! alpha-amino-acid anion relationship: is_conjugate_base_of CHEBI:33719 ! alpha-amino-acid cation relationship: is_tautomer_of CHEBI:78608 ! alpha-amino-acid zwitterion +relationship: RO:0018033 CHEBI:33719 ! is deprotonated form of alpha-amino-acid cation +relationship: RO:0018034 CHEBI:33558 ! is protonated form of alpha-amino-acid anion +relationship: RO:0018036 CHEBI:78608 ! is tautomer of alpha-amino-acid zwitterion [Term] id: CHEBI:33707 name: gamma-amino acid -def: "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group." [] +def: "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group." [] is_a: CHEBI:83820 ! non-proteinogenic amino acid -relationship: is_conjugate_acid_of CHEBI:71666 ! gamma-amino acid anion +relationship: RO:0018034 CHEBI:71666 ! is protonated form of gamma-amino acid anion [Term] id: CHEBI:33708 @@ -1689,6 +1751,9 @@ is_a: CHEBI:33247 ! organic group relationship: is_conjugate_acid_of CHEBI:64898 ! anionic amino-acid residue relationship: is_conjugate_base_of CHEBI:58942 ! cationic amino-acid residue relationship: is_substituent_group_from CHEBI:33709 ! amino acid +relationship: RO:0018033 CHEBI:58942 ! is deprotonated form of cationic amino-acid residue +relationship: RO:0018034 CHEBI:64898 ! is protonated form of anionic amino-acid residue +relationship: RO:0018037 CHEBI:33709 ! is substitutent group from amino acid [Term] id: CHEBI:33709 @@ -1698,6 +1763,8 @@ is_a: CHEBI:33575 ! carboxylic acid is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_acid_of CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33703 ! amino-acid cation +relationship: RO:0018033 CHEBI:33703 ! is deprotonated form of amino-acid cation +relationship: RO:0018034 CHEBI:37022 ! is protonated form of amino-acid anion [Term] id: CHEBI:33710 @@ -1705,12 +1772,14 @@ name: alpha-amino-acid residue def: "An amino-acid residue derived from an alpha-amino acid." [] is_a: CHEBI:33708 ! amino-acid residue relationship: is_substituent_group_from CHEBI:33704 ! alpha-amino acid +relationship: RO:0018037 CHEBI:33704 ! is substitutent group from alpha-amino acid [Term] id: CHEBI:33719 name: alpha-amino-acid cation is_a: CHEBI:33703 ! amino-acid cation relationship: is_conjugate_acid_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018034 CHEBI:33704 ! is protonated form of alpha-amino acid [Term] id: CHEBI:33720 @@ -1718,12 +1787,14 @@ name: carbohydrate acid is_a: CHEBI:16646 ! carbohydrate is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:33721 ! carbohydrate acid anion +relationship: RO:0018034 CHEBI:33721 ! is protonated form of carbohydrate acid anion [Term] id: CHEBI:33721 name: carbohydrate acid anion is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:33720 ! carbohydrate acid +relationship: RO:0018033 CHEBI:33720 ! is deprotonated form of carbohydrate acid [Term] id: CHEBI:33791 @@ -1804,6 +1875,7 @@ def: "An ammonium ion that is the conjugate acid of serotonin; major species at is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:28790 ! serotonin relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:28790 ! is protonated form of serotonin [Term] id: CHEBI:35106 @@ -1814,7 +1886,7 @@ is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35107 name: azane -def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] +def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] is_a: CHEBI:35106 ! nitrogen hydride [Term] @@ -1849,6 +1921,7 @@ def: "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens is_a: CHEBI:33702 ! polyatomic cation is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_parent_hydride CHEBI:28938 ! ammonium +relationship: RO:0018040 CHEBI:28938 ! has parent hydride ammonium [Term] id: CHEBI:35287 @@ -1859,7 +1932,7 @@ is_a: CHEBI:35267 ! quaternary ammonium ion [Term] id: CHEBI:35341 name: steroid -def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene." [] +def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:51958 ! organic polycyclic compound @@ -1882,12 +1955,12 @@ name: fatty acid def: "Any aliphatic monocarboxylic acid derived from or contained in esterified form in an animal or vegetable fat, oil or wax. Natural fatty acids commonly have a chain of 4 to 28 carbons (usually unbranched and even-numbered), which may be saturated or unsaturated. By extension, the term is sometimes used to embrace all acyclic aliphatic carboxylic acids." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:25384 ! monocarboxylic acid -relationship: is_conjugate_acid_of CHEBI:28868 ! fatty acid anion +relationship: RO:0018034 CHEBI:28868 ! is protonated form of fatty acid anion [Term] id: CHEBI:35381 name: monosaccharide -def: "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." [] +def: "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H‒[CHOH]n‒C(=O)[CHOH]m‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." [] is_a: CHEBI:16646 ! carbohydrate [Term] @@ -1941,14 +2014,14 @@ is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35569 name: alpha-adrenergic agonist -def: "An agent that selectively binds to and activates alpha-adrenergic receptors." [] +def: "An agent that selectively binds to and activates α-adrenergic receptors." [] is_a: CHEBI:37886 ! adrenergic agonist is_a: CHEBI:48539 ! alpha-adrenergic drug [Term] id: CHEBI:35604 name: carbon oxoanion -def: "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n." [] +def: "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOyn for some integers x, y and n." [] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion is_a: CHEBI:36963 ! organooxygen compound @@ -1971,18 +2044,18 @@ name: dicarboxylic acid def: "Any carboxylic acid containing two carboxy groups." [] is_a: CHEBI:131927 ! dicarboxylic acids and O-substituted derivatives is_a: CHEBI:33575 ! carboxylic acid -relationship: is_conjugate_acid_of CHEBI:35693 ! dicarboxylic acid anion +relationship: RO:0018034 CHEBI:35693 ! is protonated form of dicarboxylic acid anion [Term] id: CHEBI:35693 name: dicarboxylic acid anion is_a: CHEBI:29067 ! carboxylic acid anion -relationship: is_conjugate_base_of CHEBI:35692 ! dicarboxylic acid +relationship: RO:0018033 CHEBI:35692 ! is deprotonated form of dicarboxylic acid [Term] id: CHEBI:35701 name: ester -def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] +def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] is_a: CHEBI:36963 ! organooxygen compound [Term] @@ -2004,6 +2077,7 @@ name: monocarboxylic acid anion def: "A carboxylic acid anion formed when the carboxy group of a monocarboxylic acid is deprotonated." [] is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:25384 ! monocarboxylic acid +relationship: RO:0018033 CHEBI:25384 ! is deprotonated form of monocarboxylic acid [Term] id: CHEBI:35881 @@ -2022,7 +2096,7 @@ is_a: CHEBI:52210 ! pharmacological role id: CHEBI:36078 name: cholanoid is_a: CHEBI:35341 ! steroid -relationship: has_parent_hydride CHEBI:35519 ! cholane +relationship: RO:0018040 CHEBI:35519 ! has parent hydride cholane [Term] id: CHEBI:36080 @@ -2056,10 +2130,10 @@ is_a: CHEBI:36248 ! 5beta-cholanic acids [Term] id: CHEBI:36248 name: 5beta-cholanic acids -def: "Members of the class of cholanic acids based on a 5beta-cholane skeleton." [] +def: "Members of the class of cholanic acids based on a 5β-cholane skeleton." [] is_a: CHEBI:136889 ! 5beta steroid is_a: CHEBI:36278 ! cholanic acids -relationship: has_parent_hydride CHEBI:20664 ! 5beta-cholane +relationship: RO:0018040 CHEBI:20664 ! has parent hydride 5beta-cholane [Term] id: CHEBI:36277 @@ -2209,6 +2283,7 @@ name: amino-acid anion is_a: CHEBI:29067 ! carboxylic acid anion is_a: CHEBI:35352 ! organonitrogen compound relationship: is_conjugate_base_of CHEBI:33709 ! amino acid +relationship: RO:0018033 CHEBI:33709 ! is deprotonated form of amino acid [Term] id: CHEBI:37163 @@ -2274,6 +2349,7 @@ id: CHEBI:37826 name: sulfuric acid derivative is_a: CHEBI:33424 ! sulfur oxoacid derivative relationship: has_functional_parent CHEBI:26836 ! sulfuric acid +relationship: RO:0018038 CHEBI:26836 ! has functional parent sulfuric acid [Term] id: CHEBI:37838 @@ -2281,6 +2357,7 @@ name: carboacyl group def: "A carboacyl group is a group formed by loss of at least one OH from the carboxy group of a carboxylic acid." [] is_a: CHEBI:22221 ! acyl group relationship: is_substituent_group_from CHEBI:33575 ! carboxylic acid +relationship: RO:0018037 CHEBI:33575 ! is substitutent group from carboxylic acid [Term] id: CHEBI:37886 @@ -2387,18 +2464,18 @@ name: straight-chain saturated fatty acid def: "Any saturated fatty acid lacking a side-chain." [] is_a: CHEBI:26607 ! saturated fatty acid is_a: CHEBI:59202 ! straight-chain fatty acid -relationship: is_conjugate_acid_of CHEBI:58954 ! straight-chain saturated fatty acid anion +relationship: RO:0018034 CHEBI:58954 ! is protonated form of straight-chain saturated fatty acid anion [Term] id: CHEBI:41609 name: carbonate is_a: CHEBI:35604 ! carbon oxoanion -relationship: is_conjugate_base_of CHEBI:17544 ! hydrogencarbonate +relationship: RO:0018033 CHEBI:17544 ! is deprotonated form of hydrogencarbonate [Term] id: CHEBI:4167 name: D-glucopyranose -def: "A glucopyranose having D-configuration." [] +def: "A glucopyranose having D-configuration." [] is_a: CHEBI:17634 ! D-glucose is_a: CHEBI:37661 ! glucopyranose relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite @@ -2409,7 +2486,7 @@ relationship: RO:0000087 CHEBI:77746 ! has role human metabolite [Term] id: CHEBI:4194 name: D-hexose -def: "A hexose that has D-configuration at position 5." [] +def: "A hexose that has D-configuration at position 5." [] is_a: CHEBI:18133 ! hexose [Term] @@ -2423,6 +2500,8 @@ name: hydrogensulfate is_a: CHEBI:33482 ! sulfur oxoanion relationship: is_conjugate_acid_of CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:26836 ! sulfuric acid +relationship: RO:0018033 CHEBI:26836 ! is deprotonated form of sulfuric acid +relationship: RO:0018034 CHEBI:16189 ! is protonated form of sulfate [Term] id: CHEBI:46629 @@ -2447,6 +2526,7 @@ name: acetate ester def: "Any carboxylic ester where the carboxylic acid component is acetic acid." [] is_a: CHEBI:33308 ! carboxylic ester relationship: has_functional_parent CHEBI:15366 ! acetic acid +relationship: RO:0018038 CHEBI:15366 ! has functional parent acetic acid [Term] id: CHEBI:47891 @@ -2454,7 +2534,7 @@ name: steroid acid def: "Any steroid substituted by at least one carboxy group." [] is_a: CHEBI:35341 ! steroid is_a: CHEBI:64709 ! organic acid -relationship: is_conjugate_acid_of CHEBI:50160 ! steroid acid anion +relationship: RO:0018034 CHEBI:50160 ! is protonated form of steroid acid anion [Term] id: CHEBI:48154 @@ -2478,7 +2558,7 @@ is_a: CHEBI:48354 ! polar solvent [Term] id: CHEBI:48539 name: alpha-adrenergic drug -def: "Any drug that acts on an alpha-adrenergic receptor." [] +def: "Any drug that acts on an α-adrenergic receptor." [] is_a: CHEBI:37962 ! adrenergic agent [Term] @@ -2502,13 +2582,14 @@ def: "A compound formally derived from ammonia by replacing one, two or three hy is_a: CHEBI:35352 ! organonitrogen compound relationship: has_parent_hydride CHEBI:16134 ! ammonia relationship: RO:0000087 CHEBI:39142 ! has role Bronsted base +relationship: RO:0018040 CHEBI:16134 ! has parent hydride ammonia [Term] id: CHEBI:50160 name: steroid acid anion def: "Any anion formed by loss of a proton from a steroid acid." [] is_a: CHEBI:29067 ! carboxylic acid anion -relationship: is_conjugate_base_of CHEBI:47891 ! steroid acid +relationship: RO:0018033 CHEBI:47891 ! is deprotonated form of steroid acid [Term] id: CHEBI:50297 @@ -2589,6 +2670,7 @@ name: primary amino compound def: "A compound formally derived from ammonia by replacing one hydrogen atom by an organyl group." [] is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_base_of CHEBI:65296 ! primary ammonium ion +relationship: RO:0018033 CHEBI:65296 ! is deprotonated form of primary ammonium ion [Term] id: CHEBI:51086 @@ -2651,6 +2733,7 @@ is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52211 name: physiological role +def: "A biological role relating to the normal mechanisms and their interactions within a living system." [] is_a: CHEBI:24432 ! biological role [Term] @@ -2704,6 +2787,7 @@ relationship: is_conjugate_acid_of CHEBI:16765 ! tryptamine relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76924 ! has role plant metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:16765 ! is protonated form of tryptamine [Term] id: CHEBI:57977 @@ -2711,8 +2795,8 @@ name: bilirubin(2-) def: "A dicarboxylic acid dianion obtained by deprotonation of the two carboxy groups of bilirubin; major species at pH 7.3." [] is_a: CHEBI:28965 ! dicarboxylic acid dianion is_a: CHEBI:59252 ! linear tetrapyrrole anion -relationship: is_conjugate_base_of CHEBI:16990 ! bilirubin IXalpha relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16990 ! is deprotonated form of bilirubin IXalpha [Term] id: CHEBI:58942 @@ -2720,18 +2804,19 @@ name: cationic amino-acid residue def: "An amino-acid residue protonated on nitrogen." [] is_a: CHEBI:64769 ! organic cationic group relationship: is_conjugate_acid_of CHEBI:33708 ! amino-acid residue +relationship: RO:0018034 CHEBI:33708 ! is protonated form of amino-acid residue [Term] id: CHEBI:58951 name: short-chain fatty acid anion -def: "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." [] +def: "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." [] is_a: CHEBI:28868 ! fatty acid anion -relationship: is_conjugate_base_of CHEBI:26666 ! short-chain fatty acid +relationship: RO:0018033 CHEBI:26666 ! is deprotonated form of short-chain fatty acid [Term] id: CHEBI:58953 name: saturated fatty acid anion -def: "Any fatty acid anion in which there is no C-C unsaturation." [] +def: "Any fatty acid anion in which there is no C‒C unsaturation." [] is_a: CHEBI:28868 ! fatty acid anion [Term] @@ -2739,7 +2824,7 @@ id: CHEBI:58954 name: straight-chain saturated fatty acid anion def: "Any saturated fatty acid anion lacking a carbon side-chain." [] is_a: CHEBI:58953 ! saturated fatty acid anion -relationship: is_conjugate_base_of CHEBI:39418 ! straight-chain saturated fatty acid +relationship: RO:0018033 CHEBI:39418 ! is deprotonated form of straight-chain saturated fatty acid [Term] id: CHEBI:58958 @@ -2749,20 +2834,22 @@ is_a: CHEBI:25696 ! organic anion is_a: CHEBI:33482 ! sulfur oxoanion relationship: has_functional_parent CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:25704 ! organic sulfate +relationship: RO:0018033 CHEBI:25704 ! is deprotonated form of organic sulfate +relationship: RO:0018038 CHEBI:16189 ! has functional parent sulfate [Term] id: CHEBI:59202 name: straight-chain fatty acid def: "Any fatty acid whose skeletal carbon atoms form an unbranched open chain." [] is_a: CHEBI:35366 ! fatty acid -relationship: is_conjugate_acid_of CHEBI:59203 ! straight-chain fatty acid anion +relationship: RO:0018034 CHEBI:59203 ! is protonated form of straight-chain fatty acid anion [Term] id: CHEBI:59203 name: straight-chain fatty acid anion def: "A fatty acid anion formed by deprotonation of the carboxylic acid functional group of a straight-chain fatty acid." [] is_a: CHEBI:28868 ! fatty acid anion -relationship: is_conjugate_base_of CHEBI:59202 ! straight-chain fatty acid +relationship: RO:0018033 CHEBI:59202 ! is deprotonated form of straight-chain fatty acid [Term] id: CHEBI:59252 @@ -2780,30 +2867,30 @@ is_a: CHEBI:39144 ! Lewis base [Term] id: CHEBI:59814 name: L-alpha-amino acid anion -def: "Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group." [] +def: "Conjugate base of an L-α-amino acid arising from deprotonation of the C-1 carboxy group." [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_base_of CHEBI:15705 ! L-alpha-amino acid +relationship: RO:0018033 CHEBI:15705 ! is deprotonated form of L-alpha-amino acid [Term] id: CHEBI:59869 name: L-alpha-amino acid zwitterion -def: "Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of an L-α-amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:78608 ! alpha-amino-acid zwitterion -relationship: is_tautomer_of CHEBI:15705 ! L-alpha-amino acid +relationship: RO:0018036 CHEBI:15705 ! is tautomer of L-alpha-amino acid [Term] id: CHEBI:59871 name: D-alpha-amino acid zwitterion -def: "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of a D-α-amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:16733 ! D-alpha-amino acid +relationship: RO:0018036 CHEBI:16733 ! is tautomer of D-alpha-amino acid [Term] id: CHEBI:59888 name: gamma-aminobutyric acid zwitterion -def: "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:16865 ! gamma-aminobutyric acid +relationship: RO:0018036 CHEBI:16865 ! is tautomer of gamma-aminobutyric acid [Term] id: CHEBI:59999 @@ -2843,13 +2930,14 @@ name: peptide zwitterion def: "Zwitterionic form of any peptide where, in general, the amino terminus is positively charged and the carboxy terminus is negatively charged." [] is_a: CHEBI:27369 ! zwitterion relationship: is_tautomer_of CHEBI:16670 ! peptide +relationship: RO:0018036 CHEBI:16670 ! is tautomer of peptide [Term] id: CHEBI:60895 name: D-alpha-amino acid anion -def: "Any alpha-amino acid anion in which the parent amino acid has D-configuration." [] +def: "Any α-amino acid anion in which the parent amino acid has D-configuration." [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_base_of CHEBI:16733 ! D-alpha-amino acid +relationship: RO:0018033 CHEBI:16733 ! is deprotonated form of D-alpha-amino acid [Term] id: CHEBI:61115 @@ -2864,6 +2952,7 @@ def: "Any compound that has a nucleobase as a part." [] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_functional_parent CHEBI:18282 ! nucleobase +relationship: RO:0018038 CHEBI:18282 ! has functional parent nucleobase [Term] id: CHEBI:61469 @@ -2877,7 +2966,7 @@ id: CHEBI:62031 name: polar amino acid zwitterion def: "Zwitterionic form of a polar amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:26167 ! polar amino acid +relationship: RO:0018036 CHEBI:26167 ! is tautomer of polar amino acid [Term] id: CHEBI:62488 @@ -2897,6 +2986,7 @@ name: carbohydrate derivative def: "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives relationship: has_functional_parent CHEBI:16646 ! carbohydrate +relationship: RO:0018038 CHEBI:16646 ! has functional parent carbohydrate [Term] id: CHEBI:63436 @@ -2905,6 +2995,8 @@ def: "A carbohydrate derivative that is formally obtained from a carbohydrate ac is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:33720 ! carbohydrate acid relationship: is_conjugate_acid_of CHEBI:63551 ! carbohydrate acid derivative anion +relationship: RO:0018034 CHEBI:63551 ! is protonated form of carbohydrate acid derivative anion +relationship: RO:0018038 CHEBI:33720 ! has functional parent carbohydrate acid [Term] id: CHEBI:63534 @@ -2919,6 +3011,8 @@ def: "A carboxylic acid anion resulting from the deprotonation of the carboxy gr is_a: CHEBI:29067 ! carboxylic acid anion relationship: has_functional_parent CHEBI:33721 ! carbohydrate acid anion relationship: is_conjugate_base_of CHEBI:63436 ! carbohydrate acid derivative +relationship: RO:0018033 CHEBI:63436 ! is deprotonated form of carbohydrate acid derivative +relationship: RO:0018038 CHEBI:33721 ! has functional parent carbohydrate acid anion [Term] id: CHEBI:64047 @@ -2976,6 +3070,7 @@ name: organic cationic group def: "A cationic group that contains carbon." [] is_a: CHEBI:64766 ! cationic group relationship: is_conjugate_acid_of CHEBI:33247 ! organic group +relationship: RO:0018034 CHEBI:33247 ! is protonated form of organic group [Term] id: CHEBI:64775 @@ -2983,6 +3078,7 @@ name: organic anionic group def: "An anionic group that contains carbon." [] is_a: CHEBI:64767 ! anionic group relationship: is_conjugate_base_of CHEBI:33247 ! organic group +relationship: RO:0018033 CHEBI:33247 ! is deprotonated form of organic group [Term] id: CHEBI:64898 @@ -2990,6 +3086,7 @@ name: anionic amino-acid residue def: "An amino-acid residue carrying an overall negative charge." [] is_a: CHEBI:64775 ! organic anionic group relationship: is_conjugate_base_of CHEBI:33708 ! amino-acid residue +relationship: RO:0018033 CHEBI:33708 ! is deprotonated form of amino-acid residue [Term] id: CHEBI:64909 @@ -3005,6 +3102,7 @@ is_a: CHEBI:167559 ! glycan is_a: CHEBI:33694 ! biomacromolecule is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:18154 ! polysaccharide +relationship: RO:0018038 CHEBI:18154 ! has functional parent polysaccharide [Term] id: CHEBI:65255 @@ -3026,6 +3124,7 @@ def: "An ammonium ion derivative resulting from the protonation of the nitrogen is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:50994 ! primary amino compound +relationship: RO:0018034 CHEBI:50994 ! is protonated form of primary amino compound [Term] id: CHEBI:67079 @@ -3036,17 +3135,18 @@ is_a: CHEBI:33232 ! application [Term] id: CHEBI:71666 name: gamma-amino acid anion -def: "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group." [] +def: "An amino-acid anion in which the amino group is situated γ- to the carboxylate group." [] is_a: CHEBI:37022 ! amino-acid anion -relationship: is_conjugate_base_of CHEBI:33707 ! gamma-amino acid +relationship: RO:0018033 CHEBI:33707 ! is deprotonated form of gamma-amino acid [Term] id: CHEBI:72587 name: (R)-noradrenaline(1+) -def: "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3." [] +def: "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] is_a: CHEBI:166902 ! noradrenaline(1+) -relationship: is_conjugate_acid_of CHEBI:18357 ! (R)-noradrenaline relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:18357 ! is protonated form of (R)-noradrenaline +relationship: RO:0018039 CHEBI:234420 ! is enantiomer of (S)-noradrenaline(1+) [Term] id: CHEBI:72695 @@ -3076,7 +3176,7 @@ is_a: CHEBI:52845 ! cyclic organic group [Term] id: CHEBI:75600 name: EC 6.3.* (C-N bond-forming ligase) inhibitor -def: "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*)." [] +def: "A ligase inhibitor that interferes with the action of a CN bond-forming ligase (EC 6.3.*.*)." [] is_a: CHEBI:75603 ! EC 6.* (ligase) inhibitor [Term] @@ -3106,13 +3206,13 @@ is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:75771 name: mouse metabolite -def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] +def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:75772 name: Saccharomyces cerevisiae metabolite -def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae)." [] +def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae )." [] is_a: CHEBI:76946 ! fungal metabolite [Term] @@ -3148,7 +3248,7 @@ is_a: CHEBI:76764 ! EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibi [Term] id: CHEBI:76823 name: EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor -def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." [] +def: "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." [] is_a: CHEBI:75600 ! EC 6.3.* (C-N bond-forming ligase) inhibitor [Term] @@ -3179,13 +3279,13 @@ is_a: CHEBI:75787 ! prokaryotic metabolite [Term] id: CHEBI:76971 name: Escherichia coli metabolite -def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] +def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:77746 name: human metabolite -def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] +def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] is_a: CHEBI:75768 ! mammalian metabolite [Term] @@ -3206,7 +3306,7 @@ name: fatty acid anion 4:0 def: "Any saturated fatty acid anion containing 4 carbons. Formed by deprotonation of the carboxylic acid moiety. Major species at pH 7.3." [] is_a: CHEBI:58951 ! short-chain fatty acid anion is_a: CHEBI:58953 ! saturated fatty acid anion -relationship: is_conjugate_base_of CHEBI:140601 ! fatty acid 4:0 +relationship: RO:0018033 CHEBI:140601 ! is deprotonated form of fatty acid 4:0 [Term] id: CHEBI:78295 @@ -3226,11 +3326,12 @@ name: alpha-amino-acid zwitterion def: "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." [] is_a: CHEBI:35238 ! amino-acid zwitterion relationship: is_tautomer_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018036 CHEBI:33704 ! is tautomer of alpha-amino acid [Term] id: CHEBI:78616 name: carbohydrates and carbohydrate derivatives -def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] +def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] is_a: CHEBI:36963 ! organooxygen compound [Term] @@ -3260,19 +3361,19 @@ is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:83056 name: Daphnia magna metabolite -def: "A Daphnia metabolite produced by the species Daphnia magna." [] +def: "A Daphnia metabolite produced by the species Daphnia magna." [] is_a: CHEBI:83057 ! Daphnia metabolite [Term] id: CHEBI:83057 name: Daphnia metabolite -def: "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia" [] +def: "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia" [] is_a: CHEBI:83039 ! crustacean metabolite [Term] id: CHEBI:83813 name: proteinogenic amino acid -def: "Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." [] +def: "Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." [] is_a: CHEBI:33709 ! amino acid [Term] @@ -3284,7 +3385,7 @@ is_a: CHEBI:33709 ! amino acid [Term] id: CHEBI:83925 name: non-proteinogenic alpha-amino acid -def: "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." [] +def: "Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids." [] is_a: CHEBI:33704 ! alpha-amino acid is_a: CHEBI:83820 ! non-proteinogenic amino acid @@ -3309,9 +3410,10 @@ is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle +disjoint_from: GO:0044423 ! virion component relationship: BFO:0000051 GO:0005634 {gci_filler="PATO:0001407", gci_relation="RO:0000053"} ! has part nucleus relationship: BFO:0000051 GO:0005634 {gci_filler="PATO:0001908", gci_relation="RO:0000053"} ! has part nucleus -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: CL:0000005 @@ -3973,6 +4075,7 @@ name: chondrocyte synonym: "cartilage cell" EXACT [] is_a: CL:0000153 ! glycosaminoglycan secreting cell is_a: CL:0000667 ! collagen secreting cell +is_a: CL:0007001 ! skeletogenic cell relationship: RO:0001025 UBERON:0002418 ! located in cartilage tissue relationship: RO:0002202 CL:0000058 ! develops from chondroblast @@ -8864,298 +8967,298 @@ is_a: EMPTY:0000002 ! behavioral measurement [Term] id: EMPTY:0000006 name: elevated plus maze: open arm (north) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000007 name: elevated plus maze: open arm (south) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000008 name: elevated plus maze: open arm total entries -def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000009 name: elevated plus maze: open arm (north) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000010 name: elevated plus maze: open arm (south) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000011 name: elevated plus maze: open arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000012 name: elevated plus maze: open arm (north) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000013 name: elevated plus maze: open arm (south) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000014 name: elevated plus maze: open arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000015 name: elevated plus maze: open arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000016 name: elevated plus maze: open arm (north) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000017 name: elevated plus maze: open arm (south) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000018 name: elevated plus maze: open arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000019 name: elevated plus maze: open arm (north) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000020 name: elevated plus maze: open arm (south) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000021 name: elevated plus maze: open arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000022 name: elevated plus maze: open arm (north) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000023 name: elevated plus maze: open arm (south) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000024 name: elevated plus maze: open arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000025 name: elevated plus maze: closed arm (west) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000026 name: elevated plus maze: closed arm (east) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000027 name: elevated plus maze: closed arm total entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000028 name: elevated plus maze: closed arm (west) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000029 name: elevated plus maze: closed arm (east) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000030 name: elevated plus maze: closed arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000031 name: elevated plus maze: closed arm (west) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000032 name: elevated plus maze: closed arm (east) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000033 name: elevated plus maze: closed arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000034 name: elevated plus maze: closed arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000035 name: elevated plus maze: closed arm (west) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000036 name: elevated plus maze: closed arm (east) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000037 name: elevated plus maze: closed arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000038 name: elevated plus maze: closed arm (west) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000039 name: elevated plus maze: closed arm (east) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000040 name: elevated plus maze: closed arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000041 name: elevated plus maze: closed arm (west) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000042 name: elevated plus maze: closed arm (east) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000043 name: elevated plus maze: closed arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000044 name: elevated plus maze: center - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000045 name: elevated plus maze: center - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000046 name: elevated plus maze: center - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000047 name: elevated plus maze: center - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000048 name: elevated plus maze: center - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000049 name: elevated plus maze: center - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000050 name: elevated plus maze: center - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration @@ -9174,7 +9277,7 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000053 name: fear-potentiated startle: baseline acoustic startle response amplitude -def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." [] +def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -9206,7 +9309,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000058 name: fear-potentiated startle: apparatus chamber identifier -def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" [] +def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] @@ -9218,40 +9321,40 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000060 name: acoustic startle response: number of samples -def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" [] +def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000061 name: acoustic startle response: sampling rate -def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" [] +def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000062 name: acoustic startle response: startle window onset amplitude -def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." [] +def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000063 name: acoustic startle response: maximum amplitude -def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000064 name: acoustic startle response: time to maximum amplitude -def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" [] +def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000065 name: acoustic startle response: average amplitude -def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -9271,7 +9374,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000068 name: elevated plus maze: test duration -def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration is_a: EMPTY:0000092 ! elevated plus maze parameter @@ -9975,13 +10078,13 @@ is_a: EMPTY:0000164 ! contextual fear conditioning parameter [Term] id: EMPTY:0000175 name: contextual fear conditioning: time freezing -def: "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" [] +def: "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement [Term] id: EMPTY:0000176 name: contextual fear conditioning: block duration -def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" [] +def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement is_a: EMPTY:0000164 ! contextual fear conditioning parameter @@ -10321,6 +10424,175 @@ name: unknown electronic file type def: "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." [] is_a: NCIT:C172272 ! Electronic File Content Type +[Term] +id: EMPTY:0000231 +name: C. elegans chemotaxis assay parameter +def: "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." [] +is_a: EMPTY:0000101 ! C. elegans behavioral assay parameter + +[Term] +id: EMPTY:0000232 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture table +def: "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000233 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture volume +def: "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000234 +name: C. elegans chemotaxis assay parameter: assay duration +def: "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000235 +name: C. elegans chemotaxis assay measurement +def: "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." [] +is_a: EMPTY:0000100 ! C. elegans behavioral assay measurement + +[Term] +id: EMPTY:0000236 +name: C. elegans chemotaxis assay measurement: McCutcheon index +def: "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." [] +synonym: "chemotactic ratio" EXACT [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000237 +name: C. elegans chemotaxis assay measurement: mean velocity +def: "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000238 +name: investigator-defined strain +def: "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." [] +is_a: EMPTY:0000076 ! descriptor + +[Term] +id: EMPTY:0000239 +name: C. elegans strain +def: "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." [] +is_a: EMPTY:0000238 ! investigator-defined strain + +[Term] +id: EMPTY:0000240 +name: BAB9001 +def: "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000241 +name: BAB9002 +def: "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000242 +name: TM5848 +def: "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000243 +name: PT3602 +def: "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000244 +name: BAB9003 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000245 +name: BAB9004 +def: "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000246 +name: BAB9005 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000247 +name: fluorescence imaging measurement +def: "fluorescence imaging measurement" [] +is_a: EMPTY:0000001 ! measurement + +[Term] +id: EMPTY:0000248 +name: mean fluorescence intensity +def: "Mean fluorescence intensity. Unit: arbitrary units (AU)" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000249 +name: fluorescent punctal count +def: "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000250 +name: fluorescence imaging parameter +def: "A specific parameter related to fluorescence imaging acquisition or assay." [] +is_a: EMPTY:0000080 ! parameter + +[Term] +id: EMPTY:0000251 +name: fluorescence target ontology identifier +def: "fluorescence target ontology identifier" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000252 +name: fluorescence target name +def: "fluorescence target name" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000253 +name: SnapGene file format +def: "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." [] +is_a: format:1929 + +[Term] +id: EMPTY:0000254 +name: Escherichia coli OP50: heat-killed +def: "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." [] +is_a: NCBITaxon:637912 ! Escherichia coli OP50 + +[Term] +id: EMPTY:0000255 +name: C. elegans transfer method: M9 buffer wash +def: "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000256 +name: C. elegans transfer method: titanium pick +def: "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000257 +name: C. elegans chemotaxis assay: video recording +def: "A video recording capturing the behavior of C. elegans during a chemotaxis assay." [] +is_a: EMPTY:0000129 ! C. elegans behavioral assay: video recording + +[Term] +id: EMPTY:0000258 +name: fluorescence imaging data +def: "An image or video acquired using fluorescence microscopy." [] +is_a: NCIT:C16856 ! Fluorescence Microscopy + [Term] id: GO:0000011 name: vacuole inheritance @@ -16125,6 +16397,7 @@ name: biological_process synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] is_a: BFO:0000015 ! process +relationship: BFO:0000051 GO:0003674 ! has part molecular_function [Term] id: GO:0008152 @@ -17085,6 +17358,14 @@ intersection_of: GO:0008356 ! asymmetric cell division intersection_of: RO:0004009 CL:0000365 ! has primary input animal zygote relationship: RO:0004009 CL:0000365 ! has primary input animal zygote +[Term] +id: GO:0010155 +name: regulation of proton transport +is_a: GO:1904062 ! regulation of monoatomic cation transmembrane transport +intersection_of: GO:0065007 ! biological regulation +intersection_of: RO:0002211 GO:1902600 ! regulates (processual) proton transmembrane transport +relationship: RO:0002211 GO:1902600 ! regulates (processual) proton transmembrane transport + [Term] id: GO:0010160 name: formation of animal organ boundary @@ -18776,22 +19057,6 @@ intersection_of: GO:0050896 ! response to stimulus intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation relationship: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation -[Term] -id: GO:0014878 -name: response to electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0014874 ! response to stimulus involved in regulation of muscle adaptation -is_a: GO:0051602 ! response to electrical stimulus -intersection_of: GO:0051602 ! response to electrical stimulus -intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation - -[Term] -id: GO:0014879 -name: detection of electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0014878 ! response to electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0050981 ! detection of electrical stimulus -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation - [Term] id: GO:0014887 name: cardiac muscle adaptation @@ -18899,6 +19164,18 @@ intersection_of: RO:0004009 CHEBI:24867 ! has primary input monoatomic ion relationship: BFO:0000050 GO:0034220 ! part of monoatomic ion transmembrane transport relationship: RO:0004009 CHEBI:24867 ! has primary input monoatomic ion +[Term] +id: GO:0015078 +name: proton transmembrane transporter activity +synonym: "hydrogen ion transmembrane transporter activity" EXACT [] +synonym: "proton transporter activity" EXACT [] +is_a: GO:0008324 ! monoatomic cation transmembrane transporter activity +intersection_of: GO:0005215 ! transporter activity +intersection_of: RO:0002342 GO:0016020 ! results in transport across membrane +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron +relationship: BFO:0000050 GO:1902600 ! part of proton transmembrane transport +relationship: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:0015081 name: sodium ion transmembrane transporter activity @@ -19836,7 +20113,7 @@ intersection_of: GO:0042592 ! homeostatic process intersection_of: BFO:0000066 CL:0000000 ! occurs in cell disjoint_from: GO:0048872 ! homeostasis of number of cells relationship: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0019748 @@ -22229,6 +22506,7 @@ synonym: "proteinaceous extracellular matrix" EXACT [] is_a: GO:0030312 ! external encapsulating structure disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle +disjoint_from: GO:0044423 ! virion component [Term] id: GO:0031016 @@ -23425,7 +23703,7 @@ is_a: GO:0045185 ! maintenance of protein location is_a: GO:0051651 ! maintenance of location in cell intersection_of: GO:0045185 ! maintenance of protein location intersection_of: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0032528 @@ -23858,6 +24136,7 @@ synonym: "macromolecule complex" EXACT [] synonym: "protein containing complex" EXACT [] is_a: COB:0000080 ! complex of molecules is_a: GO:0005575 ! cellular_component +disjoint_from: GO:0044423 ! virion component disjoint_from: GO:0110165 ! cellular anatomical entity relationship: BFO:0000051 PR:000000001 ! has part protein property_value: IAO:0000118 "protein complex" xsd:string @@ -25365,7 +25644,7 @@ relationship: RO:0012008 GO:0000139 ! results in fusion of Golgi membrane id: GO:0040007 name: growth is_a: GO:0008150 ! biological_process -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0040008 @@ -26540,6 +26819,7 @@ relationship: BFO:0000050 CL:0000125 ! part of glial cell id: GO:0043226 name: organelle is_a: GO:0110165 ! cellular anatomical entity +disjoint_from: GO:0044423 ! virion component [Term] id: GO:0043227 @@ -26814,7 +27094,7 @@ relationship: RO:0002211 GO:0016052 ! regulates (processual) carbohydrate catabo id: GO:0043473 name: pigmentation is_a: GO:0008150 ! biological_process -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0043500 @@ -27310,7 +27590,9 @@ is_a: GO:0008150 ! biological_process id: GO:0044423 name: virion component def: "Any constituent part of a virion, a complete fully infectious extracellular virus particle." [] +synonym: "virion part" EXACT [] is_a: GO:0005575 ! cellular_component +disjoint_from: GO:0110165 ! cellular anatomical entity [Term] id: GO:0044458 @@ -32065,11 +32347,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: RO:0002213 GO:0050931 ! positively regulates pigment cell differentiation relationship: RO:0002213 GO:0050931 ! positively regulates pigment cell differentiation -[Term] -id: GO:0050952 -name: sensory perception of electrical stimulus -is_a: GO:0007600 ! sensory perception - [Term] id: GO:0050953 name: sensory perception of light stimulus @@ -32082,13 +32359,6 @@ synonym: "mechanosensory perception" EXACT [] synonym: "perception of mechanical stimulus" EXACT [] is_a: GO:0007600 ! sensory perception -[Term] -id: GO:0050956 -name: electroception -synonym: "electroception sense" EXACT [] -synonym: "electroceptive sense" EXACT [] -is_a: GO:0050952 ! sensory perception of electrical stimulus - [Term] id: GO:0050962 name: detection of light stimulus involved in sensory perception @@ -32104,44 +32374,6 @@ intersection_of: GO:0009583 ! detection of light stimulus intersection_of: BFO:0000050 GO:0007600 ! part of sensory perception relationship: BFO:0000050 GO:0050953 ! part of sensory perception of light stimulus -[Term] -id: GO:0050963 -name: detection of electrical stimulus involved in sensory perception -synonym: "sensory detection of electrical stimulus" EXACT [] -synonym: "sensory detection of electrical stimulus during sensory perception" EXACT [] -synonym: "sensory perception, sensory detection of electrical stimulus" EXACT [] -synonym: "sensory perception, sensory transduction of electrical stimulus" EXACT [] -synonym: "sensory transduction of electrical stimulus" EXACT [] -synonym: "sensory transduction of electrical stimulus during sensory perception" EXACT [] -is_a: GO:0050906 ! detection of stimulus involved in sensory perception -is_a: GO:0050981 ! detection of electrical stimulus -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0007600 ! part of sensory perception -relationship: BFO:0000050 GO:0050952 ! part of sensory perception of electrical stimulus - -[Term] -id: GO:0050964 -name: detection of electrical stimulus involved in electroception -synonym: "electroception, detection of electrical stimulus" EXACT [] -synonym: "electroception, sensory detection of electrical stimulus" EXACT [] -synonym: "electroception, sensory transduction" EXACT [] -synonym: "electroception, sensory transduction of electrical stimulus" EXACT [] -is_a: GO:0050963 ! detection of electrical stimulus involved in sensory perception -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0050956 ! part of electroception -relationship: BFO:0000050 GO:0050956 ! part of electroception - -[Term] -id: GO:0050967 -name: detection of electrical stimulus involved in sensory perception of pain -synonym: "perception of pain, detection of electrical stimulus" EXACT [] -synonym: "perception of pain, sensory detection of electrical stimulus" EXACT [] -synonym: "perception of pain, sensory transduction of electrical stimulus" EXACT [] -is_a: GO:0050963 ! detection of electrical stimulus involved in sensory perception -is_a: GO:0062149 ! detection of stimulus involved in sensory perception of pain -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0019233 ! part of sensory perception of pain - [Term] id: GO:0050968 name: detection of chemical stimulus involved in sensory perception of pain @@ -32164,12 +32396,6 @@ synonym: "taction" EXACT [] synonym: "tactition" EXACT [] is_a: GO:0050954 ! sensory perception of mechanical stimulus -[Term] -id: GO:0050981 -name: detection of electrical stimulus -is_a: GO:0009582 ! detection of abiotic stimulus -is_a: GO:0051602 ! response to electrical stimulus - [Term] id: GO:0050994 name: regulation of lipid catabolic process @@ -33069,11 +33295,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: RO:0002213 GO:0006836 ! positively regulates neurotransmitter transport relationship: RO:0002213 GO:0006836 ! positively regulates neurotransmitter transport -[Term] -id: GO:0051602 -name: response to electrical stimulus -is_a: GO:0009628 ! response to abiotic stimulus - [Term] id: GO:0051606 name: detection of stimulus @@ -33234,7 +33455,7 @@ intersection_of: GO:0051234 ! establishment of localization intersection_of: BFO:0000066 CL:0000000 ! occurs in cell relationship: BFO:0000050 GO:0051641 ! part of cellular localization relationship: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0051650 @@ -40754,6 +40975,7 @@ synonym: "cellular anatomical entity" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: GO:0005575 ! cellular_component is_a: UBERON:0000061 ! anatomical structure +disjoint_from: UBERON:0000001 ! gross anatomical part relationship: BFO:0000051 COB:0000013 ! has part molecule [Term] @@ -40790,6 +41012,18 @@ intersection_of: GO:0042995 ! cell projection intersection_of: BFO:0000051 GO:0098590 ! has part plasma membrane region relationship: BFO:0000051 GO:0098590 ! has part plasma membrane region +[Term] +id: GO:0120029 +name: proton export across plasma membrane +synonym: "hydrogen ion export across plasma membrane" EXACT [] +is_a: GO:0140115 ! export across plasma membrane +is_a: GO:1902600 ! proton transmembrane transport +intersection_of: GO:0006810 ! transport +intersection_of: RO:0002338 GO:0005829 ! has target start location cytosol +intersection_of: RO:0002339 GO:0005576 ! has target end location extracellular region +intersection_of: RO:0002342 GO:0005886 ! results in transport across plasma membrane +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:0120031 name: plasma membrane bounded cell projection assembly @@ -43532,6 +43766,17 @@ intersection_of: GO:0008104 ! intracellular protein localization intersection_of: RO:0002339 GO:0005730 ! has target end location nucleolus relationship: RO:0002339 GO:0005730 ! has target end location nucleolus +[Term] +id: GO:1902600 +name: proton transmembrane transport +synonym: "hydrogen ion transmembrane transport" EXACT [] +synonym: "hydrogen transmembrane transport" EXACT [] +is_a: GO:0098655 ! monoatomic cation transmembrane transport +is_a: GO:0098662 ! inorganic cation transmembrane transport +intersection_of: GO:0055085 ! transmembrane transport +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron +relationship: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:1902679 name: negative regulation of RNA biosynthetic process @@ -49094,7 +49339,7 @@ is_a: IAO:0000104 ! plan specification [Term] id: IAO:0000027 -name: data item +name: data entity def: "An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." [] is_a: IAO:0000030 ! information content entity @@ -49143,7 +49388,7 @@ is_a: IAO:0000033 ! directive information entity id: IAO:0000100 name: data set def: "A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets." [] -is_a: IAO:0000027 ! data item +is_a: IAO:0000027 ! data entity [Term] id: IAO:0000101 @@ -49155,7 +49400,7 @@ is_a: IAO:0000308 ! figure id: IAO:0000102 name: data about an ontology part def: "Data about an ontology part is a data item about a part of an ontology, for example a term" [] -is_a: IAO:0000027 ! data item +is_a: IAO:0000027 ! data entity [Term] id: IAO:0000104 @@ -49386,6 +49631,16 @@ id: NCBITaxon:1206795 name: Lophotrochozoa is_a: NCBITaxon:2697495 ! Spiralia +[Term] +id: NCBITaxon:1224 +name: Pseudomonadota +is_a: NCBITaxon:3379134 ! Pseudomonadati + +[Term] +id: NCBITaxon:1236 +name: Gammaproteobacteria +is_a: NCBITaxon:1224 ! Pseudomonadota + [Term] id: NCBITaxon:124129 name: Acipenserinae @@ -49415,7 +49670,8 @@ disjoint_from: NCBITaxon:33511 ! Deuterostomia [Term] id: NCBITaxon:131567 -name: cellular organisms +name: cellular organism +is_a: COB:0000022 ! organism is_a: NCBITaxon:1 ! root [Term] @@ -49528,7 +49784,7 @@ is_a: NCBITaxon:6656 ! Arthropoda [Term] id: NCBITaxon:2 name: Bacteria -is_a: NCBITaxon:131567 ! cellular organisms +is_a: NCBITaxon:131567 ! cellular organism [Term] id: NCBITaxon:2058185 @@ -49548,7 +49804,7 @@ is_a: NCBITaxon:9604 ! Hominidae [Term] id: NCBITaxon:2157 name: Archaea -is_a: NCBITaxon:131567 ! cellular organisms +is_a: NCBITaxon:131567 ! cellular organism [Term] id: NCBITaxon:2301116 @@ -49603,9 +49859,7 @@ is_a: NCBITaxon:2743709 ! Danionidae [Term] id: NCBITaxon:2759 name: Eukaryota -is_a: COB:0000022 ! organism -is_a: NCBITaxon:131567 ! cellular organisms -property_value: IAO:0000118 "eucaryotes" xsd:string +is_a: NCBITaxon:131567 ! cellular organism property_value: IAO:0000118 "eukaryotes" xsd:string [Term] @@ -49736,6 +49990,7 @@ id: NCBITaxon:33208 name: Metazoa is_a: NCBITaxon:33154 ! Opisthokonta disjoint_from: NCBITaxon:4751 ! Fungi +property_value: IAO:0000118 "animals" xsd:string property_value: IAO:0000118 "metazoans" xsd:string property_value: IAO:0000118 "multicellular animals" xsd:string @@ -49791,6 +50046,11 @@ id: NCBITaxon:3378 name: Gnetales is_a: NCBITaxon:1445966 ! Gnetidae +[Term] +id: NCBITaxon:3379134 +name: Pseudomonadati +is_a: NCBITaxon:2 ! Bacteria + [Term] id: NCBITaxon:3398 name: Magnoliopsida @@ -49968,6 +50228,11 @@ id: NCBITaxon:50557 name: Insecta is_a: NCBITaxon:6960 ! Hexapoda +[Term] +id: NCBITaxon:543 +name: Enterobacteriaceae +is_a: NCBITaxon:91347 ! Enterobacterales + [Term] id: NCBITaxon:554915 name: Amoebozoa @@ -49983,6 +50248,16 @@ id: NCBITaxon:55885 name: Peloderinae is_a: NCBITaxon:6243 ! Rhabditidae +[Term] +id: NCBITaxon:561 +name: Escherichia +is_a: NCBITaxon:543 ! Enterobacteriaceae + +[Term] +id: NCBITaxon:562 +name: Escherichia coli +is_a: NCBITaxon:561 ! Escherichia + [Term] id: NCBITaxon:5782 name: Dictyostelium @@ -50061,6 +50336,11 @@ id: NCBITaxon:6362 name: Sabellida is_a: NCBITaxon:105391 ! Canalipalpata +[Term] +id: NCBITaxon:637912 +name: Escherichia coli OP50 +is_a: NCBITaxon:562 ! Escherichia coli + [Term] id: NCBITaxon:6656 name: Arthropoda @@ -50331,6 +50611,11 @@ id: NCBITaxon:89593 name: Craniata is_a: NCBITaxon:7711 ! Chordata +[Term] +id: NCBITaxon:91347 +name: Enterobacterales +is_a: NCBITaxon:1236 ! Gammaproteobacteria + [Term] id: NCBITaxon:9254 name: Prototheria @@ -50429,11 +50714,27 @@ id: NCIT:C14376 name: Other Organism Groupings is_a: NCIT:C14250 ! Organism +[Term] +id: NCIT:C16203 +name: Clinical or Research Activity +is_a: NCIT:C43431 ! Activity + [Term] id: NCIT:C16847 name: Technique is_a: NCIT:C43431 ! Activity +[Term] +id: NCIT:C16853 +name: Microscopy +is_a: NCIT:C17369 ! Imaging Procedure +is_a: NCIT:C74957 ! Mixed Category Laboratory Procedure + +[Term] +id: NCIT:C16856 +name: Fluorescence Microscopy +is_a: NCIT:C17995 ! Light Microscopy + [Term] id: NCIT:C17187 name: Technology @@ -50444,12 +50745,22 @@ id: NCIT:C172272 name: Electronic File Content Type is_a: NCIT:C25284 ! Type +[Term] +id: NCIT:C17369 +name: Imaging Procedure +is_a: NCIT:C25218 ! Clinical Intervention or Procedure + [Term] id: NCIT:C179817 name: Velocity is_a: NCIT:C25447 ! Characteristic is_a: NCIT:C70766 ! Quantitative Concept +[Term] +id: NCIT:C17995 +name: Light Microscopy +is_a: NCIT:C16853 ! Microscopy + [Term] id: NCIT:C18141 name: Computer Sciences @@ -50522,6 +50833,11 @@ id: NCIT:C25206 name: Temperature is_a: NCIT:C25447 ! Characteristic +[Term] +id: NCIT:C25218 +name: Clinical Intervention or Procedure +is_a: NCIT:C16203 ! Clinical or Research Activity + [Term] id: NCIT:C25284 name: Type @@ -50532,6 +50848,11 @@ id: NCIT:C25285 name: Diameter is_a: NCIT:C70766 ! Quantitative Concept +[Term] +id: NCIT:C25294 +name: Laboratory Procedure +is_a: NCIT:C25218 ! Clinical Intervention or Procedure + [Term] id: NCIT:C25335 name: Volume @@ -50647,6 +50968,11 @@ id: NCIT:C73706 name: Spatial Qualifier is_a: NCIT:C41009 ! Qualifier +[Term] +id: NCIT:C74957 +name: Mixed Category Laboratory Procedure +is_a: NCIT:C25294 ! Laboratory Procedure + [Term] id: NCIT:C85776 name: Optical Density Measurement @@ -51087,9 +51413,9 @@ id: OBI:0200000 name: data transformation def: "A completely executed planned process that produces output data from input data." [] is_a: COB:0000035 ! completely executed planned process -relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data item -relationship: OBI:0000293 IAO:0000027 ! has specified input data item -relationship: OBI:0000299 IAO:0000027 ! has specified output data item +relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data entity +relationship: OBI:0000293 IAO:0000027 ! has specified input data entity +relationship: OBI:0000299 IAO:0000027 ! has specified output data entity relationship: OBI:0000417 OBI:0200166 ! achieves_planned_objective data transformation objective property_value: IAO:0000118 "data analysis" xsd:string property_value: IAO:0000118 "data processing" xsd:string @@ -51138,8 +51464,8 @@ id: OBI:0200111 name: data visualization def: "A planned process with the objective to graphically represent some data by inputing the data and outputting images, diagrams or animations." [] is_a: COB:0000035 ! completely executed planned process -relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data item -relationship: OBI:0000293 IAO:0000027 ! has specified input data item +relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data entity +relationship: OBI:0000293 IAO:0000027 ! has specified input data entity property_value: IAO:0000118 "data encoding as image" xsd:string property_value: IAO:0000118 "visualization" xsd:string @@ -53061,9 +53387,14 @@ is_a: BFO:0000040 ! material entity [Term] id: UBERON:0000000 name: processual entity -is_a: BFO:0000003 ! occurrent disjoint_from: UBERON:0001062 ! anatomical entity +[Term] +id: UBERON:0000001 +name: gross anatomical part +is_a: UBERON:0000465 ! material anatomical entity +disjoint_from: UBERON:0000468 ! multicellular organism + [Term] id: UBERON:0000005 name: chemosensory organ @@ -53320,6 +53651,7 @@ relationship: RO:0002220 UBERON:0002553 ! adjacent to anatomical cavity [Term] id: UBERON:0000061 name: anatomical structure +def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." [] synonym: "biological structure" EXACT [] is_a: UBERON:0000465 ! material anatomical entity relationship: RO:0002496 UBERON:0000106 {gci_filler="NCBITaxon:33208", gci_relation="RO:0002162"} ! existence starts during or after zygote stage @@ -53533,6 +53865,7 @@ synonym: "entire life cycle" EXACT [] synonym: "entire lifespan" EXACT [] synonym: "life" EXACT [] synonym: "lifespan" EXACT [] +is_a: BFO:0000015 ! process is_a: UBERON:0000000 ! processual entity relationship: RO:0002224 UBERON:0000106 {gci_filler="NCBITaxon:33208", gci_relation="RO:0002162"} ! starts with zygote stage relationship: RO:0002230 UBERON:0000071 ! ends with death stage @@ -53540,6 +53873,7 @@ relationship: RO:0002230 UBERON:0000071 ! ends with death stage [Term] id: UBERON:0000105 name: life cycle stage +is_a: BFO:0000015 ! process is_a: UBERON:0000000 ! processual entity relationship: BFO:0000050 UBERON:0000104 ! part of life cycle @@ -53757,7 +54091,6 @@ name: proximal-distal subdivision of colon is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001155 ! colon -relationship: BFO:0000050 UBERON:0001155 ! part of colon relationship: subdivision_of UBERON:0001155 ! colon [Term] @@ -54155,7 +54488,8 @@ relationship: RO:0020101 UBERON:0001675 ! vessel supplies blood to trigeminal ga [Term] id: UBERON:0000463 name: organism substance -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part +disjoint_from: UBERON:0000468 ! multicellular organism relationship: BFO:0000050 UBERON:0000468 ! part of multicellular organism relationship: RO:0000086 PATO:0002198 ! has quality quality of a substance @@ -54229,6 +54563,7 @@ relationship: RO:0002131 UBERON:0002416 {gci_filler="NCBITaxon:6072", gci_relati [Term] id: UBERON:0000476 name: acellular anatomical structure +is_a: UBERON:0000001 ! gross anatomical part is_a: UBERON:0000061 ! anatomical structure [Term] @@ -63602,7 +63937,6 @@ name: subdivision of digestive tract is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001555 ! digestive tract -relationship: BFO:0000050 UBERON:0001555 ! part of digestive tract relationship: subdivision_of UBERON:0001555 ! digestive tract [Term] @@ -64375,7 +64709,7 @@ relationship: RO:0002202 UBERON:0003372 ! develops from pectoral appendage bud e [Term] id: UBERON:0005423 name: developing anatomical structure -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part relationship: RO:0002215 GO:0032502 ! capable of developmental process [Term] @@ -65187,7 +65521,6 @@ is_a: UBERON:0006077 ! subdivision of vertebral column intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0006071 ! caudal region relationship: BFO:0000050 UBERON:0002090 ! part of postcranial axial skeleton -relationship: BFO:0000050 UBERON:0006071 ! part of caudal region relationship: subdivision_of UBERON:0006071 ! caudal region [Term] @@ -65198,7 +65531,6 @@ synonym: "vertebral series" EXACT [] is_a: UBERON:0000075 ! subdivision of skeletal system intersection_of: UBERON:0000075 ! subdivision of skeletal system intersection_of: subdivision_of UBERON:0001130 ! vertebral column -relationship: BFO:0000050 UBERON:0001130 ! part of vertebral column relationship: BFO:0000050 UBERON:0001137 ! part of dorsum relationship: subdivision_of UBERON:0001130 ! vertebral column @@ -67532,7 +67864,6 @@ is_a: UBERON:0006077 ! subdivision of vertebral column intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: BFO:0000050 UBERON:0002100 ! part of trunk intersection_of: subdivision_of UBERON:0002100 ! trunk -relationship: BFO:0000050 UBERON:0002100 ! part of trunk relationship: subdivision_of UBERON:0002100 ! trunk [Term] @@ -68862,16 +69193,6 @@ is_a: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: BFO:0000051 CL:0000067 ! has part ciliated epithelial cell -[Term] -id: UBERON:0010521 -name: electroreceptor organ -synonym: "electric sense organ" EXACT [] -synonym: "electroreception organ" EXACT [] -is_a: UBERON:0000020 ! sense organ -intersection_of: UBERON:0000062 ! organ -intersection_of: RO:0002215 GO:0050964 ! capable of detection of electrical stimulus involved in electroception -relationship: RO:0002215 GO:0050964 ! capable of detection of electrical stimulus involved in electroception - [Term] id: UBERON:0010522 name: replacement element @@ -70299,7 +70620,6 @@ relationship: RO:0002221 UBERON:0000468 ! surrounds multicellular organism id: UBERON:0013522 name: subdivision of tube is_a: UBERON:0000064 ! organ part -relationship: BFO:0000050 UBERON:0000025 ! part of tube relationship: BFO:0000051 UBERON:0000060 ! has part anatomical wall relationship: BFO:0000051 UBERON:0000464 ! has part anatomical space relationship: subdivision_of UBERON:0000025 ! tube @@ -72479,7 +72799,7 @@ relationship: RO:0002176 UBERON:0001159 ! connects sigmoid colon [Term] id: UBERON:0036215 name: anatomical surface region -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part relationship: RO:0002007 UBERON:0000061 ! bounding layer of anatomical structure [Term] @@ -73293,6 +73613,14 @@ intersection_of: UBERON:0000030 ! lamina propria intersection_of: BFO:0000050 UBERON:0001052 ! part of rectum relationship: BFO:0000050 UBERON:0001052 ! part of rectum +[Term] +id: UBERON:8850001 +name: epithelium of anorectum +is_a: UBERON:0001278 ! epithelium of large intestine +intersection_of: UBERON:0000483 ! epithelium +intersection_of: BFO:0000050 UBERON:8410050 ! part of anorectum +relationship: BFO:0000050 UBERON:8410050 ! part of anorectum + [Term] id: UO:0000001 name: length unit @@ -74088,7 +74416,7 @@ inverse_of: RO:0002336 ! positively regulated by [Typedef] id: RO:0002215 name: capable of -def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] +def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process." [] property_value: IAO:0000118 "has function realized in" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000015 ! process @@ -75282,6 +75610,59 @@ name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] holds_over_chain: RO:0002215 RO:0002233 +[Typedef] +id: RO:0018030 +name: chemical relationship + +[Typedef] +id: RO:0018033 +name: is deprotonated form of +def: "A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." [] +is_transitive: true +is_a: RO:0018030 ! chemical relationship +inverse_of: RO:0018034 ! is protonated form of + +[Typedef] +id: RO:0018034 +name: is protonated form of +def: "A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." [] +is_transitive: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018036 +name: is tautomer of +def: "Two chemicals are tautomers if they can be readily interconverted.\n\nThis commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms." [] +synonym: "is desmotrope of" EXACT [] +is_symmetric: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018037 +name: is substitutent group from +def: "Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization." [] +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018038 +name: has functional parent +def: "Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. \n\nFor example, the relationship between a salt and a freebased compound is a \"has functional parent\" relationship." [] +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018039 +name: is enantiomer of +def: "Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center.\n\nA chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers)." [] +synonym: "is optical isomer of" EXACT [] +is_symmetric: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018040 +name: has parent hydride +def: "Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B." [] +is_a: RO:0018030 ! chemical relationship + [Typedef] id: RO:0019000 name: regulates characteristic @@ -75420,6 +75801,7 @@ def: "c site_of p if c is the bearer of a disposition that is realized by a proc [Typedef] id: subdivision_of name: subdivision of +is_a: BFO:0000050 ! part of [Typedef] id: transitively_anteriorly_connected_to diff --git a/empty-full.owl b/empty-full.owl index b96f9d0..51b7939 100644 --- a/empty-full.owl +++ b/empty-full.owl @@ -13,13 +13,13 @@ xmlns:dcterms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences. Experimental Measurements Purposes and Treatments ontologY EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. Release 2025-07-10 - 2026-02-23 + 2026-04-04 @@ -38,8 +38,11 @@ + A property representing the English language definitions of what NCI means by the concept. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. + English language definitions of what NCI means by the concept. These are limited to 1024 characters. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. + The official definition. definition definition textual definition @@ -1527,6 +1530,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. + A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. has function realized in capable of @@ -3628,6 +3632,101 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + chemical relationship + + + + + + + + + + + A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations. + is deprotonated form of + + + + + + + + + + A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations. + is protonated form of + + + + + + + + + + Two chemicals are tautomers if they can be readily interconverted. + +This commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms. + is desmotrope of + is tautomer of + + + + + + + + + Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization. + is substitutent group from + + + + + + + + + Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. + +For example, the relationship between a salt and a freebased compound is a "has functional parent" relationship. + has functional parent + + + + + + + + + + Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center. + +A chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers). + is optical isomer of + is enantiomer of + + + + + + + + + Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B. + has parent hydride + + + + @@ -3760,12 +3859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - @@ -3928,6 +4021,7 @@ For example, A and B may be gene products and binding of B by A positively regul + subdivision of @@ -4183,6 +4277,7 @@ For example, A and B may be gene products and binding of B by A positively regul Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV. + Elementary particle not affected by the strong force having a spin ½, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV. electron @@ -4192,7 +4287,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium. + Any bacterial metabolite produced during a metabolic reaction in <em>Mycoplasma genitalium</em>. Mycoplasma genitalium metabolite @@ -4213,6 +4308,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4229,7 +4330,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any steroid that has beta-configuration at position 5. + Any steroid that has β-configuration at position 5. 5beta steroid @@ -4240,6 +4341,7 @@ For example, A and B may be gene products and binding of B by A positively regul A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water. + A Brønsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water. inorganic acid @@ -4251,7 +4353,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration. + Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as <i>allo</i>-bile acids, have 5α-configuration. bile acids @@ -4262,6 +4364,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa). + Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0°C and 100 kPa). gas molecular entity @@ -4271,6 +4374,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4288,7 +4397,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -4308,7 +4417,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22. + An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22. 24G7 epitope @@ -4326,17 +4435,17 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group glutamate(1-) @@ -4427,6 +4536,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4439,6 +4554,19 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes). + hydron + + + + @@ -4487,6 +4615,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4502,7 +4636,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals. + Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]<small><sub><em>n</em></sub></small>C(=O)H, <em>n</em> ≥ 2) and their intramolecular hemiacetals. aldose @@ -4514,17 +4648,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - Any alpha-amino acid having L-configuration at the alpha-carbon. + Any α-amino acid having <small>L</small>-configuration at the α-carbon. L-alpha-amino acid @@ -4559,17 +4693,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An optically active form of glutamic acid having D-configuration. + An optically active form of glutamic acid having <small>D</small>-configuration. D-glutamic acid @@ -4635,17 +4769,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An optically active form of glutamic acid having L-configuration. + An optically active form of glutamic acid having <small>L</small>-configuration. L-glutamic acid @@ -4693,6 +4827,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -4735,6 +4881,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4758,12 +4910,19 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + A mucopolysaccharide composed of <em>N</em>-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells. A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells. hyaluronic acid @@ -4790,6 +4949,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula C<small><sub><em>m</em></sub></small>(H<small><sub>2</sub></small>O)<small><sub><em>n</em></sub></small>. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates. Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates. carbohydrate @@ -4808,6 +4968,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4828,10 +4994,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + + An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. noradrenaline(1+) @@ -4843,13 +5010,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -4862,6 +5029,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also <a href="http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001" target="_blank">http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001</a>. Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001. glycan @@ -4893,6 +5061,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4936,23 +5110,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - - + + - A gamma-amino acid that is butanoic acid with the amino substituent located at C-4. + A γ-amino acid that is butanoic acid with the amino substituent located at C-4. gamma-aminobutyric acid @@ -4989,7 +5163,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -5003,7 +5177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H). + A compound in which a carbonyl group is bonded to two carbon atoms: R<small><sub>2</sub></small>C=O (neither R may be H). ketone @@ -5082,14 +5256,14 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + The carbon oxoanion resulting from the removal of a proton from carbonic acid. @@ -5103,7 +5277,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any D-aldose having a chain of six carbon atoms in the molecule. + Any <small>D</small>-aldose having a chain of six carbon atoms in the molecule. D-aldohexose @@ -5114,7 +5288,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A glucose with D-configuration. + A glucose with <small>D</small>-configuration. D-glucose @@ -5158,7 +5332,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -5229,11 +5403,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2. + An α-amino acid that is glutaric acid bearing a single amino substituent at position 2. glutamic acid @@ -5285,17 +5459,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - The R-enantiomer of noradrenaline. + The <i>R</i>-enantiomer of noradrenaline. (R)-noradrenaline @@ -5314,6 +5488,7 @@ For example, A and B may be gene products and binding of B by A positively regul + An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids. An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids. acyl group @@ -5382,6 +5557,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base). + A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Brønsted base) or with the vacant orbital of some other molecular entity (Lewis base). base @@ -5404,6 +5580,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any compound that produces a peak used as reference frequency in the delta chemical shift scale. + Any compound that produces a peak used as reference frequency in the δ chemical shift scale. NMR chemical shift reference compound @@ -5424,6 +5601,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5465,6 +5648,28 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + An organic cation that is the conjugate acid of (<i>S</i>)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. + (S)-noradrenaline(1+) + + + + @@ -5510,7 +5715,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class. + An <small>L</small>-α-amino acid which is <small>L</small>-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class. glutamine family amino acid @@ -5520,7 +5725,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2). + An EC 6.3.* (<em>C</em>‒<em>N</em> bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2). EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor @@ -5607,7 +5812,8 @@ For example, A and B may be gene products and binding of B by A positively regul - + + Nuclear particle of charge number +1, spin 1/2 and rest mass of 1.007276470(12) u. Nuclear particle of charge number +1, spin ½ and rest mass of 1.007276470(12) u. @@ -5629,6 +5835,7 @@ For example, A and B may be gene products and binding of B by A positively regul Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-)). + Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH<small><sup>−</small></sup>). hydroxides @@ -5641,11 +5848,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position. + Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position. hydroxy-5beta-cholanic acid @@ -5717,12 +5924,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - A salt is an assembly of cations and anions. salt @@ -5819,6 +6020,7 @@ For example, A and B may be gene products and binding of B by A positively regul A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan. + A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (‒CH<small><sub>2</sub></small>‒CH<small><sub>2</sub></small>‒). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan. monoamine molecular messenger @@ -5828,6 +6030,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5920,6 +6128,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5996,7 +6210,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6022,11 +6236,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid. + An aliphatic monocarboxylic acid with a chain length of less than C<small><sub>6</sub></small>. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid. short-chain fatty acid @@ -6163,6 +6377,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6268,7 +6488,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues. + A polydisperse, highly branched glucan composed of chains of <small>D</small>-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues. glycogen @@ -6286,6 +6506,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6324,6 +6550,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6349,7 +6587,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6389,6 +6627,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6425,7 +6669,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6439,6 +6683,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6481,6 +6731,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6503,6 +6765,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6519,6 +6787,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6554,23 +6828,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - + - An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of <small>L</small>-glutamic acid, having anionic carboxy groups and a cationic amino group L-glutamate(1-) @@ -6582,23 +6856,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - + - An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of <small>D</small>-glutamic acid, having anionic carboxy groups and a cationic amino group D-glutamate(1-) @@ -6616,11 +6890,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - A dicarboxylic acid dianion that is the conjugate base of glutamate(1-). + A dicarboxylic acid dianion that is the conjugate base of glutamate(1−). glutamate(2-) @@ -6633,17 +6907,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid. + An <small>L</small>-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of <small>L</small>-glutamic acid. L-glutamate(2-) @@ -6655,13 +6929,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -6686,6 +6960,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6702,6 +6982,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Particle of zero charge, zero rest mass, spin quantum number 1, energy <em>h</em><em>ν</em> and momentum <em>h</em><em>ν</em>/<em>c</em> (<em>h</em> is the Planck constant, <em>ν</em> the frequency of radiation and <em>c</em> the speed of light), carrier of electromagnetic force. Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force. photon @@ -6720,17 +7001,17 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid. + An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid. gamma-aminobutyrate @@ -6755,7 +7036,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6770,7 +7051,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration. + Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration. bile acid @@ -6790,6 +7071,7 @@ For example, A and B may be gene products and binding of B by A positively regul + An amide is a derivative of an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. amide @@ -6830,6 +7112,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6876,6 +7164,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6908,12 +7208,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - @@ -6926,6 +7220,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + monoatomic hydrogen + + + + @@ -6957,6 +7261,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A derivative of an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. primary amide @@ -6973,6 +7278,17 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + elemental hydrogen + + + + @@ -7126,6 +7442,7 @@ For example, A and B may be gene products and binding of B by A positively regul An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl. + An ester of a carboxylic acid, R<small><sup>1</small></sup>C(=O)OR<small><sup>2</small></sup>, where R<small><sup>1</small></sup> = H or organyl and R<small><sup>2</small></sup> = organyl. carboxylic ester @@ -7218,6 +7535,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7225,6 +7548,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino-acid anion obtained by deprotonation of any alpha-amino acid. + An amino-acid anion obtained by deprotonation of any α-amino acid. alpha-amino-acid anion @@ -7253,7 +7577,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any compound containing an o-diphenol component. + Any compound containing an <em>o</em>-diphenol component. catechols @@ -7282,7 +7606,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -7307,11 +7631,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + + - The S-enantiomer of noradrenaline. + The <i>S</i>-enantiomer of noradrenaline. (S)-noradrenaline @@ -7329,6 +7659,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7336,6 +7672,7 @@ For example, A and B may be gene products and binding of B by A positively regul A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid. + A carbon oxoacid acid carrying at least one ‒C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid. carboxylic acid @@ -7386,12 +7723,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - hydrogen molecular entity @@ -7421,6 +7752,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character. + A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekulé structure) is said to possess aromatic character. aromatic compound @@ -7462,12 +7794,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element. s-block molecular entity @@ -7546,6 +7872,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), <small>D</small>-ribose or 2-deoxy-<small>D</small>-ribose and phosphoric acid. A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid. nucleic acid @@ -7599,6 +7926,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7614,6 +7947,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + @@ -7633,6 +7984,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group. + An amino acid in which the amino group is located on the carbon atom at the position α to the carboxy group. alpha-amino acid @@ -7644,11 +7996,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group. + A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group. gamma-amino acid @@ -7658,6 +8010,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + @@ -7687,6 +8057,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -7709,6 +8091,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7716,6 +8104,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino-acid residue derived from an alpha-amino acid. + An amino-acid residue derived from an α-amino acid. alpha-amino-acid residue @@ -7725,6 +8114,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7741,6 +8136,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7756,6 +8157,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7813,6 +8220,7 @@ For example, A and B may be gene products and binding of B by A positively regul A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2). + A heterocyclic compound formally derived from an arene by replacement of one or more methine (‒C=) and/or vinylene (‒CH=CH‒) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous π-electron system characteristic of aromatic systems and a number of out-of-plane π-electrons corresponding to the Hückel rule (4<em>n</em>+2). heteroarene @@ -7893,6 +8301,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7919,6 +8333,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Saturated acyclic nitrogen hydrides having the general formula N<small><sub><em>n</em></sub></small>H<small><sub><em>n</em>+2</sub></small>. Saturated acyclic nitrogen hydrides having the general formula NnHn+2. azane @@ -7961,6 +8376,7 @@ For example, A and B may be gene products and binding of B by A positively regul A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups. + A derivative of ammonium, NH<small><sub>4</sub></small><small><sup>+</small></sup>, in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups. quaternary ammonium ion @@ -7971,6 +8387,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7978,6 +8400,7 @@ For example, A and B may be gene products and binding of B by A positively regul A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc). + A derivative of ammonium, NH<small><sub>4</sub></small><small><sup>+</small></sup>, in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc). ammonium ion derivative @@ -7998,6 +8421,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[<em>a</em>]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene. Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene. steroid @@ -8032,7 +8456,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8046,7 +8470,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group. + Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]<small><sub><em>n</em></sub></small>C(=O)H or polyhydroxy ketones H‒[CHOH]<small><sub><em>n</em></sub></small>‒C(=O)[CHOH]<small><sub><em>m</em></sub></small>‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group. monosaccharide @@ -8137,7 +8561,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An agent that selectively binds to and activates alpha-adrenergic receptors. + An agent that selectively binds to and activates α-adrenergic receptors. alpha-adrenergic agonist @@ -8149,7 +8573,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n. + A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula C<small><sub><em>x</em></sub></small>O<small><sub><em>y</em></sub></small><small><sup><em>n</em>−</small></sup> for some integers <em>x</em>, <em>y</em> and <em>n</em>. carbon oxoanion @@ -8182,7 +8606,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8198,7 +8622,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8211,6 +8635,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A compound formally derived from an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter. A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter. ester @@ -8242,6 +8667,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8281,7 +8712,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8347,11 +8778,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Members of the class of cholanic acids based on a 5beta-cholane skeleton. + Members of the class of cholanic acids based on a 5β-cholane skeleton. 5beta-cholanic acids @@ -8384,6 +8815,7 @@ For example, A and B may be gene products and binding of B by A positively regul Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin). + Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek λεπτοσ (small, thin). lepton @@ -8395,6 +8827,7 @@ For example, A and B may be gene products and binding of B by A positively regul Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy). + Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek βαρυσ (heavy). baryon @@ -8607,6 +9040,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8680,6 +9119,7 @@ For example, A and B may be gene products and binding of B by A positively regul An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid). + An acid is a molecular entity capable of donating a hydron (Brønsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid). acid @@ -8708,6 +9148,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom. + An amide of a carboxylic acid, having the structure RC(=O)NR<small><sub>2</sub></small>. The term is used as a suffix in systematic name formation to denote the ‒C(=O)NH<small><sub>2</sub></small> group including its carbon atom. carboxamide @@ -8726,6 +9167,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8741,6 +9188,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8894,6 +9347,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity capable of donating a hydron to an acceptor (Bronsted base). + A molecular entity capable of donating a hydron to an acceptor (Brønsted base). Bronsted acid @@ -8905,6 +9359,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity capable of accepting a hydron from a donor (Bronsted acid). + A molecular entity capable of accepting a hydron from a donor (Brønsted acid). Bronsted base @@ -8928,7 +9383,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8944,7 +9399,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8982,7 +9437,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A glucopyranose having D-configuration. + A glucopyranose having <small>D</small>-configuration. D-glucopyranose @@ -8992,7 +9447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A hexose that has D-configuration at position 5. + A hexose that has <small>D</small>-configuration at position 5. D-hexose @@ -9011,6 +9466,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -9061,6 +9528,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9080,7 +9553,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9125,7 +9598,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any drug that acts on an alpha-adrenergic receptor. + Any drug that acts on an α-adrenergic receptor. alpha-adrenergic drug @@ -9168,6 +9641,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9186,7 +9665,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9330,6 +9809,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9449,6 +9934,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A biological role relating to the normal mechanisms and their interactions within a living system. physiological role @@ -9546,6 +10032,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9571,7 +10063,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9585,6 +10077,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9603,11 +10101,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6). + Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C<small><sub>6</sub></small>). short-chain fatty acid anion @@ -9617,7 +10115,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any fatty acid anion in which there is no C-C unsaturation. + Any fatty acid anion in which there is no C‒C unsaturation. saturated fatty acid anion @@ -9629,7 +10127,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9644,6 +10142,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -9657,6 +10167,7 @@ For example, A and B may be gene products and binding of B by A positively regul An organic anion of general formula RS(=O)2O(-) where R is an organyl group. + An organic anion of general formula RS(=O)2O(−) where R is an organyl group. organosulfate oxoanion @@ -9668,7 +10179,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9684,7 +10195,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9721,11 +10232,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group. + Conjugate base of an <small>L</small>-α-amino acid arising from deprotonation of the C-1 carboxy group. L-alpha-amino acid anion @@ -9737,11 +10248,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of an <small>L</small>-α-amino acid having an anionic carboxy group and a protonated amino group. L-alpha-amino acid zwitterion @@ -9753,11 +10264,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of a <small>D</small>-α-amino acid having an anionic carboxy group and a protonated amino group. D-alpha-amino acid zwitterion @@ -9769,11 +10280,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group. gamma-aminobutyric acid zwitterion @@ -9845,6 +10356,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9863,11 +10380,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any alpha-amino acid anion in which the parent amino acid has D-configuration. + Any α-amino acid anion in which the parent amino acid has <small>D</small>-configuration. D-alpha-amino acid anion @@ -9888,6 +10405,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9922,7 +10445,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9956,6 +10479,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9972,6 +10501,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -10004,6 +10545,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -10069,6 +10622,7 @@ For example, A and B may be gene products and binding of B by A positively regul An organic molecular entity containing a single carbon atom (C1). + An organic molecular entity containing a single carbon atom (C<small><sub>1</sub></small>). one-carbon compound @@ -10108,6 +10662,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10124,6 +10684,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10140,6 +10706,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10168,6 +10740,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10206,6 +10784,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10234,11 +10818,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An amino-acid anion in which the amino group is situated gamma- to the carboxylate group. + An amino-acid anion in which the amino group is situated γ- to the carboxylate group. gamma-amino acid anion @@ -10256,11 +10840,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3. + + + + + + + An organic cation that is the conjugate acid of (<i>R</i>)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. (R)-noradrenaline(1+) @@ -10311,7 +10901,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*). + A ligase inhibitor that interferes with the action of a <em>C</em>‒<em>N</em> bond-forming ligase (EC 6.3.*.*). EC 6.3.* (C-N bond-forming ligase) inhibitor @@ -10361,6 +10951,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any mammalian metabolite produced during a metabolic reaction in a mouse (<em>Mus musculus</em>). Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus). mouse metabolite @@ -10371,6 +10962,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any fungal metabolite produced during a metabolic reaction in Baker's yeast (<em>Saccharomyces cerevisiae </em>). Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae). Saccharomyces cerevisiae metabolite @@ -10431,7 +11023,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). + An EC 6.3.* (<em>C</em>‒<em>N</em> bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor @@ -10482,6 +11074,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any bacterial metabolite produced during a metabolic reaction in <em>Escherichia coli</em>. Any bacterial metabolite produced during a metabolic reaction in Escherichia coli. Escherichia coli metabolite @@ -10492,6 +11085,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any mammalian metabolite produced during a metabolic reaction in humans (<em>Homo sapiens</em>). Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens). human metabolite @@ -10525,7 +11119,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -10559,6 +11153,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10566,6 +11166,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3. + An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any α-amino acid; major species at pH 7.3. alpha-amino-acid zwitterion @@ -10575,6 +11176,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula C<small><sub><em>m</em></sub></small>(H<small><sub>2</sub></small>O)<small><sub><em>n</em></sub></small>; carbohydrate derivatives may contain other elements by substitution or condensation. Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation. carbohydrates and carbohydrate derivatives @@ -10625,6 +11227,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A <em>Daphnia</em> metabolite produced by the species <em>Daphnia magna</em>. A Daphnia metabolite produced by the species Daphnia magna. Daphnia magna metabolite @@ -10635,6 +11238,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A crustacean metabolite produced by the genus of small planktonic arthropods, <em>Daphnia</em> A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia Daphnia metabolite @@ -10645,7 +11249,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration. + Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and <em>N</em>-formylmethionine. Apart from glycine, which is non-chiral, all have <small>L</small> configuration. proteinogenic amino acid @@ -10666,7 +11270,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids. + Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids. non-proteinogenic alpha-amino acid @@ -10730,6 +11334,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. cell @@ -12592,6 +13197,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -27526,7 +28132,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (north) - entries @@ -27536,7 +28142,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (south) - entries @@ -27546,7 +28152,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count + In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count elevated plus maze: open arm total entries @@ -27556,7 +28162,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count elevated plus maze: open arm (north) - head entries @@ -27566,7 +28172,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count elevated plus maze: open arm (south) - head entries @@ -27576,7 +28182,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count elevated plus maze: open arm total head entries @@ -27587,7 +28193,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - time @@ -27598,7 +28204,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time @@ -27609,7 +28215,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds elevated plus maze: open arm total time @@ -27619,7 +28225,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: % elevated plus maze: open arm total - percent time during test duration @@ -27630,7 +28236,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - latency to first entry @@ -27641,7 +28247,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - latency to first entry @@ -27652,7 +28258,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds elevated plus maze: open arm total latency to first entry @@ -27663,7 +28269,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (north) - time moving towards @@ -27674,7 +28280,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (south) - time moving towards @@ -27685,7 +28291,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds elevated plus maze: open arm total time moving towards @@ -27696,7 +28302,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds elevated plus maze: open arm (north) - time freezing @@ -27707,7 +28313,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time freezing @@ -27718,7 +28324,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds elevated plus maze: open arm total time freezing @@ -27728,7 +28334,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count elevated plus maze: closed arm (west) - entries @@ -27738,7 +28344,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count elevated plus maze: closed arm (east) - entries @@ -27748,7 +28354,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count elevated plus maze: closed arm total entries @@ -27758,7 +28364,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count elevated plus maze: closed arm (west) - head entries @@ -27768,7 +28374,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count elevated plus maze: closed arm (east) - head entries @@ -27778,7 +28384,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count elevated plus maze: closed arm total head entries @@ -27789,7 +28395,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time @@ -27800,7 +28406,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time @@ -27811,7 +28417,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds elevated plus maze: closed arm total time @@ -27821,7 +28427,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: % elevated plus maze: closed arm total - percent time during test duration @@ -27832,7 +28438,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - latency to first entry @@ -27843,7 +28449,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - latency to first entry @@ -27854,7 +28460,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total latency to first entry @@ -27865,7 +28471,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time moving towards @@ -27876,7 +28482,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time moving towards @@ -27887,7 +28493,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time moving towards @@ -27898,7 +28504,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time freezing @@ -27909,7 +28515,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time freezing @@ -27920,7 +28526,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time freezing @@ -27930,7 +28536,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count elevated plus maze: center - entries @@ -27940,7 +28546,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count elevated plus maze: center - head entries @@ -27951,7 +28557,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds elevated plus maze: center - time @@ -27961,7 +28567,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: % elevated plus maze: center - percent time during test duration @@ -27972,7 +28578,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds elevated plus maze: center - latency to first entry @@ -27983,7 +28589,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds elevated plus maze: center - time moving towards @@ -27994,7 +28600,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds elevated plus maze: center - time freezing @@ -28025,7 +28631,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score. + In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score. fear-potentiated startle: baseline acoustic startle response amplitude @@ -28076,7 +28682,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string + Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string fear-potentiated startle: apparatus chamber identifier @@ -28096,7 +28702,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count + The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count acoustic startle response: number of samples @@ -28106,7 +28712,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz) + The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz) acoustic startle response: sampling rate @@ -28117,7 +28723,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration. + The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration. acoustic startle response: startle window onset amplitude @@ -28128,7 +28734,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units. + The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units. acoustic startle response: maximum amplitude @@ -28139,7 +28745,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms) + The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms) acoustic startle response: time to maximum amplitude @@ -28150,7 +28756,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units. + The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units. acoustic startle response: average amplitude @@ -28183,7 +28789,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds elevated plus maze: test duration @@ -29313,7 +29919,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds + The number of seconds the individual spent freezing during a given period of time. Unit: seconds contextual fear conditioning: time freezing @@ -29324,7 +29930,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds + In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds contextual fear conditioning: block duration @@ -29882,6 +30488,287 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans. + C. elegans chemotaxis assay parameter + + + + + + + + + A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans. + C. elegans chemotaxis assay parameter: chemoattractant mixture table + + + + + + + + + The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL). + C. elegans chemotaxis assay parameter: chemoattractant mixture volume + + + + + + + + + The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes. + C. elegans chemotaxis assay parameter: assay duration + + + + + + + + + A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source. + C. elegans chemotaxis assay measurement + + + + + + + + + A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1. + chemotactic ratio + C. elegans chemotaxis assay measurement: McCutcheon index + + + + + + + + + The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s). + C. elegans chemotaxis assay measurement: mean velocity + + + + + + + + + A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository. + investigator-defined strain + + + + + + + + + A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures. + C. elegans strain + + + + + + + + + A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD] + BAB9001 + + + + + + + + + A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD] + BAB9002 + + + + + + + + + A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD] + TM5848 + + + + + + + + + A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD] + PT3602 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD] + BAB9003 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9004 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9005 + + + + + + + + + fluorescence imaging measurement + fluorescence imaging measurement + + + + + + + + + Mean fluorescence intensity. Unit: arbitrary units (AU) + mean fluorescence intensity + + + + + + + + + A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count + fluorescent punctal count + + + + + + + + + A specific parameter related to fluorescence imaging acquisition or assay. + fluorescence imaging parameter + + + + + + + + + fluorescence target ontology identifier + fluorescence target ontology identifier + + + + + + + + + fluorescence target name + fluorescence target name + + + + + + + + + A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites. + SnapGene file format + + + + + + + + + A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays. + Escherichia coli OP50: heat-killed + + + + + + + + + Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper. + C. elegans transfer method: M9 buffer wash + + + + + + + + + Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate. + C. elegans transfer method: titanium pick + + + + + + + + + A video recording capturing the behavior of C. elegans during a chemotaxis assay. + C. elegans chemotaxis assay: video recording + + + + + + + + + An image or video acquired using fluorescence microscopy. + fluorescence imaging data + + + + @@ -48376,6 +49263,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + biological process physiological process biological process @@ -51166,6 +52059,32 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + regulation of proton transport + + + + @@ -56875,22 +57794,27 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - + - - + + - - + + + + + + + @@ -56915,27 +57839,32 @@ For example, A and B may be gene products and binding of B by A positively regul - response to electrical stimulus involved in regulation of muscle adaptation + cardiac muscle adaptation - + - + - + - - + + - - + + + + + + + @@ -56960,32 +57889,27 @@ For example, A and B may be gene products and binding of B by A positively regul - detection of electrical stimulus involved in regulation of muscle adaptation + striated muscle adaptation - + - + - + - + - - - - - - - + + @@ -57010,114 +57934,19 @@ For example, A and B may be gene products and binding of B by A positively regul - cardiac muscle adaptation + smooth muscle hypertrophy - + - - - - - - - - - - - - - + + - - - - - - - - - - - - - - - - - - - - - - - - - - - - striated muscle adaptation - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - smooth muscle hypertrophy - - - - - - - - - - - - + @@ -57441,6 +58270,44 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion transmembrane transporter activity + proton transporter activity + proton transmembrane transporter activity + + + + @@ -67878,6 +68745,7 @@ For example, A and B may be gene products and binding of B by A positively regul + proteinaceous extracellular matrix extracellular matrix @@ -72537,6 +73405,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. protein complex @@ -80788,6 +81657,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -83214,7 +84084,35 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + Any constituent part of a virion, a complete fully infectious extracellular virus particle. + virion part virion component @@ -97021,15 +97919,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - sensory perception of electrical stimulus - - - - @@ -97050,17 +97939,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - electroception sense - electroceptive sense - electroception - - - - @@ -97094,93 +97972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - sensory detection of electrical stimulus - sensory detection of electrical stimulus during sensory perception - sensory perception, sensory detection of electrical stimulus - sensory perception, sensory transduction of electrical stimulus - sensory transduction of electrical stimulus - sensory transduction of electrical stimulus during sensory perception - detection of electrical stimulus involved in sensory perception - - - - - - - - - - - - - - - - - - - - - - - - - - electroception, detection of electrical stimulus - electroception, sensory detection of electrical stimulus - electroception, sensory transduction - electroception, sensory transduction of electrical stimulus - detection of electrical stimulus involved in electroception - - - - - - - - - - - - - - - - - - - - - perception of pain, detection of electrical stimulus - perception of pain, sensory detection of electrical stimulus - perception of pain, sensory transduction of electrical stimulus - detection of electrical stimulus involved in sensory perception of pain - - - - @@ -97220,16 +98011,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - detection of electrical stimulus - - - - @@ -99660,15 +100441,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - response to electrical stimulus - - - - @@ -124993,6 +125765,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex. cellular anatomical entity cellular anatomical entity @@ -125107,6 +125880,40 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion export across plasma membrane + proton export across plasma membrane + + + + @@ -133867,6 +134674,35 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion transmembrane transport + hydrogen transmembrane transport + proton transmembrane transport + + + + @@ -152650,6 +153486,7 @@ interpreted by or directly executed by a processing unit. An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements. + data entity data item @@ -153192,6 +154029,24 @@ clustering algorithm. + + + + + Pseudomonadota + + + + + + + + + Gammaproteobacteria + + + + @@ -153242,7 +154097,9 @@ clustering algorithm. + + cellular organism cellular organisms @@ -153577,9 +154434,7 @@ clustering algorithm. - - eucaryotes eukaryotes Eukaryota @@ -153806,6 +154661,7 @@ clustering algorithm. + animals metazoans multicellular animals Metazoa @@ -153905,6 +154761,15 @@ clustering algorithm. + + + + + Pseudomonadati + + + + @@ -154222,6 +155087,15 @@ clustering algorithm. + + + + + Enterobacteriaceae + + + + @@ -154249,6 +155123,24 @@ clustering algorithm. + + + + + Escherichia + + + + + + + + + Escherichia coli + + + + @@ -154387,6 +155279,15 @@ clustering algorithm. + + + + + Escherichia coli OP50 + + + + @@ -154869,6 +155770,15 @@ clustering algorithm. + + + + + Enterobacterales + + + + @@ -155045,6 +155955,15 @@ clustering algorithm. + + + + + Clinical or Research Activity + + + + @@ -155054,6 +155973,25 @@ clustering algorithm. + + + + + + Microscopy + + + + + + + + + Fluorescence Microscopy + + + + @@ -155072,6 +156010,15 @@ clustering algorithm. + + + + + Imaging Procedure + + + + @@ -155082,6 +156029,15 @@ clustering algorithm. + + + + + Light Microscopy + + + + @@ -155210,6 +156166,15 @@ clustering algorithm. + + + + + Clinical Intervention or Procedure + + + + @@ -155228,6 +156193,15 @@ clustering algorithm. + + + + + Laboratory Procedure + + + + @@ -155435,6 +156409,15 @@ clustering algorithm. + + + + + Mixed Category Laboratory Procedure + + + + @@ -160575,13 +161558,22 @@ class labels for these objects. The resulting predictor can be used to attach cl - processual entity + + + + + + gross anatomical part + + + + @@ -161367,6 +162359,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. biological structure anatomical structure @@ -161976,6 +162969,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + @@ -161995,6 +162989,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + @@ -162682,12 +163677,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -163970,7 +164959,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -163983,6 +164972,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + organism substance @@ -164127,6 +165117,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + acellular anatomical structure @@ -193316,12 +194307,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -195697,7 +196682,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -198140,12 +199125,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -198172,12 +199151,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -205617,12 +206590,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -209718,34 +210685,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - - - - - - - - - - - - - - - - - electric sense organ - electroreception organ - electroreceptor organ - - - - @@ -214074,12 +215013,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -220902,7 +221835,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -223410,6 +224343,32 @@ class labels for these objects. The resulting predictor can be used to attach cl + + + + + + + + + + + + + + + + + + + + + + epithelium of anorectum + + + + @@ -223500,6 +224459,18 @@ class labels for these objects. The resulting predictor can be used to attach cl + + + + + + + + + + + + diff --git a/empty-simple.json b/empty-simple.json index 35c78fd..415c047 100644 --- a/empty-simple.json +++ b/empty-simple.json @@ -16,12 +16,12 @@ "val" : "EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use." }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2026-02-23" + "val" : "2026-04-04" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", "val" : "Release 2025-07-10" } ], - "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-02-23/empty-simple.json" + "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-04-04/empty-simple.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/EMPTY_0000001", @@ -74,7 +74,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -83,7 +83,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -92,7 +92,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" } } }, { @@ -101,7 +101,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" } } }, { @@ -110,7 +110,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" } } }, { @@ -119,7 +119,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" } } }, { @@ -128,7 +128,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -137,7 +137,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -146,7 +146,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" } } }, { @@ -155,7 +155,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" } } }, { @@ -164,7 +164,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -173,7 +173,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -182,7 +182,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" } } }, { @@ -191,7 +191,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -200,7 +200,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -209,7 +209,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" } } }, { @@ -218,7 +218,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" } } }, { @@ -227,7 +227,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -236,7 +236,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" } } }, { @@ -245,7 +245,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" } } }, { @@ -254,7 +254,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" } } }, { @@ -263,7 +263,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" } } }, { @@ -272,7 +272,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" } } }, { @@ -281,7 +281,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" } } }, { @@ -290,7 +290,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" } } }, { @@ -299,7 +299,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -308,7 +308,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -317,7 +317,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" } } }, { @@ -326,7 +326,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" } } }, { @@ -335,7 +335,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -344,7 +344,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -353,7 +353,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -362,7 +362,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -371,7 +371,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -380,7 +380,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -389,7 +389,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -398,7 +398,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -407,7 +407,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -416,7 +416,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" } } }, { @@ -425,7 +425,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" } } }, { @@ -434,7 +434,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" } } }, { @@ -443,7 +443,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" } } }, { @@ -452,7 +452,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" } } }, { @@ -461,7 +461,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" } } }, { @@ -470,7 +470,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" } } }, { @@ -497,7 +497,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." + "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." } } }, { @@ -542,7 +542,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" + "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" } } }, { @@ -560,7 +560,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" + "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" } } }, { @@ -569,7 +569,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" + "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" } } }, { @@ -578,7 +578,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." + "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." } } }, { @@ -587,7 +587,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." } } }, { @@ -596,7 +596,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" + "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" } } }, { @@ -605,7 +605,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." } } }, { @@ -632,7 +632,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" } } }, { @@ -1609,7 +1609,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" + "val" : "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" } } }, { @@ -1618,7 +1618,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" + "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" } } }, { @@ -2096,6 +2096,262 @@ "val" : "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." } } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "lbl" : "C. elegans chemotaxis assay parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture table", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000233", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture volume", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000234", + "lbl" : "C. elegans chemotaxis assay parameter: assay duration", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000235", + "lbl" : "C. elegans chemotaxis assay measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000236", + "lbl" : "C. elegans chemotaxis assay measurement: McCutcheon index", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "chemotactic ratio" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000237", + "lbl" : "C. elegans chemotaxis assay measurement: mean velocity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000238", + "lbl" : "investigator-defined strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000239", + "lbl" : "C. elegans strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000240", + "lbl" : "BAB9001", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000241", + "lbl" : "BAB9002", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000242", + "lbl" : "TM5848", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000243", + "lbl" : "PT3602", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000244", + "lbl" : "BAB9003", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000245", + "lbl" : "BAB9004", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000246", + "lbl" : "BAB9005", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000247", + "lbl" : "fluorescence imaging measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence imaging measurement" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000248", + "lbl" : "mean fluorescence intensity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Mean fluorescence intensity. Unit: arbitrary units (AU)" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000249", + "lbl" : "fluorescent punctal count", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000250", + "lbl" : "fluorescence imaging parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific parameter related to fluorescence imaging acquisition or assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000251", + "lbl" : "fluorescence target ontology identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target ontology identifier" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000252", + "lbl" : "fluorescence target name", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target name" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000253", + "lbl" : "SnapGene file format", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000254", + "lbl" : "Escherichia coli OP50: heat-killed", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "lbl" : "C. elegans transfer method: M9 buffer wash", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "lbl" : "C. elegans transfer method: titanium pick", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "lbl" : "C. elegans chemotaxis assay: video recording", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A video recording capturing the behavior of C. elegans during a chemotaxis assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000258", + "lbl" : "fluorescence imaging data", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An image or video acquired using fluorescence microscopy." + } + } }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000115", "lbl" : "textual definition", @@ -2103,7 +2359,7 @@ "propertyType" : "ANNOTATION", "meta" : { "definition" : { - "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + "val" : "The official definition." } } }, { @@ -3298,6 +3554,106 @@ "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000225", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000083" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000101" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000231" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000233", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000231" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000234", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000231" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000235", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000100" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000236", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000235" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000237", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000235" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000238", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000076" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000239", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000238" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000240", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000241", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000242", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000243", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000244", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000245", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000246", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000247", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000001" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000248", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000247" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000249", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000247" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000250", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000080" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000251", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000250" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000252", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000250" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000189" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000189" + }, { + "sub" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/EMPTY_0000129" } ] } ] } \ No newline at end of file diff --git a/empty-simple.obo b/empty-simple.obo index 4cf4a20..48d4b90 100644 --- a/empty-simple.obo +++ b/empty-simple.obo @@ -1,10 +1,10 @@ format-version: 1.2 -data-version: empty/releases/2026-02-23/empty-simple.owl +data-version: empty/releases/2026-04-04/empty-simple.owl idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# idspace: terms http://purl.org/dc/terms/ remark: EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. ontology: empty/empty-simple -property_value: owl:versionInfo "2026-02-23" xsd:string +property_value: owl:versionInfo "2026-04-04" xsd:string property_value: owl:versionInfo "Release 2025-07-10" xsd:string property_value: terms:description "An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences." xsd:string property_value: terms:license https://creativecommons.org/licenses/by/4.0/ @@ -42,298 +42,298 @@ is_a: EMPTY:0000002 ! behavioral measurement [Term] id: EMPTY:0000006 name: elevated plus maze: open arm (north) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000007 name: elevated plus maze: open arm (south) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000008 name: elevated plus maze: open arm total entries -def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000009 name: elevated plus maze: open arm (north) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000010 name: elevated plus maze: open arm (south) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000011 name: elevated plus maze: open arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000012 name: elevated plus maze: open arm (north) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000013 name: elevated plus maze: open arm (south) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000014 name: elevated plus maze: open arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000015 name: elevated plus maze: open arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000016 name: elevated plus maze: open arm (north) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000017 name: elevated plus maze: open arm (south) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000018 name: elevated plus maze: open arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000019 name: elevated plus maze: open arm (north) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000020 name: elevated plus maze: open arm (south) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000021 name: elevated plus maze: open arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000022 name: elevated plus maze: open arm (north) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000023 name: elevated plus maze: open arm (south) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000024 name: elevated plus maze: open arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000025 name: elevated plus maze: closed arm (west) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000026 name: elevated plus maze: closed arm (east) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000027 name: elevated plus maze: closed arm total entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000028 name: elevated plus maze: closed arm (west) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000029 name: elevated plus maze: closed arm (east) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000030 name: elevated plus maze: closed arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000031 name: elevated plus maze: closed arm (west) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000032 name: elevated plus maze: closed arm (east) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000033 name: elevated plus maze: closed arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000034 name: elevated plus maze: closed arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000035 name: elevated plus maze: closed arm (west) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000036 name: elevated plus maze: closed arm (east) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000037 name: elevated plus maze: closed arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000038 name: elevated plus maze: closed arm (west) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000039 name: elevated plus maze: closed arm (east) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000040 name: elevated plus maze: closed arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000041 name: elevated plus maze: closed arm (west) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000042 name: elevated plus maze: closed arm (east) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000043 name: elevated plus maze: closed arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000044 name: elevated plus maze: center - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000045 name: elevated plus maze: center - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000046 name: elevated plus maze: center - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000047 name: elevated plus maze: center - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000048 name: elevated plus maze: center - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000049 name: elevated plus maze: center - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000050 name: elevated plus maze: center - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration @@ -352,7 +352,7 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000053 name: fear-potentiated startle: baseline acoustic startle response amplitude -def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." [] +def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -384,7 +384,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000058 name: fear-potentiated startle: apparatus chamber identifier -def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" [] +def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] @@ -396,40 +396,40 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000060 name: acoustic startle response: number of samples -def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" [] +def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000061 name: acoustic startle response: sampling rate -def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" [] +def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000062 name: acoustic startle response: startle window onset amplitude -def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." [] +def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000063 name: acoustic startle response: maximum amplitude -def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000064 name: acoustic startle response: time to maximum amplitude -def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" [] +def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000065 name: acoustic startle response: average amplitude -def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -449,7 +449,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000068 name: elevated plus maze: test duration -def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration is_a: EMPTY:0000092 ! elevated plus maze parameter @@ -1120,13 +1120,13 @@ is_a: EMPTY:0000164 ! contextual fear conditioning parameter [Term] id: EMPTY:0000175 name: contextual fear conditioning: time freezing -def: "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" [] +def: "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement [Term] id: EMPTY:0000176 name: contextual fear conditioning: block duration -def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" [] +def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement is_a: EMPTY:0000164 ! contextual fear conditioning parameter @@ -1450,3 +1450,169 @@ id: EMPTY:0000230 name: unknown electronic file type def: "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." [] +[Term] +id: EMPTY:0000231 +name: C. elegans chemotaxis assay parameter +def: "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." [] +is_a: EMPTY:0000101 ! C. elegans behavioral assay parameter + +[Term] +id: EMPTY:0000232 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture table +def: "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000233 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture volume +def: "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000234 +name: C. elegans chemotaxis assay parameter: assay duration +def: "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000235 +name: C. elegans chemotaxis assay measurement +def: "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." [] +is_a: EMPTY:0000100 ! C. elegans behavioral assay measurement + +[Term] +id: EMPTY:0000236 +name: C. elegans chemotaxis assay measurement: McCutcheon index +def: "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." [] +synonym: "chemotactic ratio" EXACT [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000237 +name: C. elegans chemotaxis assay measurement: mean velocity +def: "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000238 +name: investigator-defined strain +def: "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." [] +is_a: EMPTY:0000076 ! descriptor + +[Term] +id: EMPTY:0000239 +name: C. elegans strain +def: "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." [] +is_a: EMPTY:0000238 ! investigator-defined strain + +[Term] +id: EMPTY:0000240 +name: BAB9001 +def: "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000241 +name: BAB9002 +def: "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000242 +name: TM5848 +def: "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000243 +name: PT3602 +def: "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000244 +name: BAB9003 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000245 +name: BAB9004 +def: "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000246 +name: BAB9005 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000247 +name: fluorescence imaging measurement +def: "fluorescence imaging measurement" [] +is_a: EMPTY:0000001 ! measurement + +[Term] +id: EMPTY:0000248 +name: mean fluorescence intensity +def: "Mean fluorescence intensity. Unit: arbitrary units (AU)" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000249 +name: fluorescent punctal count +def: "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000250 +name: fluorescence imaging parameter +def: "A specific parameter related to fluorescence imaging acquisition or assay." [] +is_a: EMPTY:0000080 ! parameter + +[Term] +id: EMPTY:0000251 +name: fluorescence target ontology identifier +def: "fluorescence target ontology identifier" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000252 +name: fluorescence target name +def: "fluorescence target name" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000253 +name: SnapGene file format +def: "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." [] + +[Term] +id: EMPTY:0000254 +name: Escherichia coli OP50: heat-killed +def: "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." [] + +[Term] +id: EMPTY:0000255 +name: C. elegans transfer method: M9 buffer wash +def: "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000256 +name: C. elegans transfer method: titanium pick +def: "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000257 +name: C. elegans chemotaxis assay: video recording +def: "A video recording capturing the behavior of C. elegans during a chemotaxis assay." [] +is_a: EMPTY:0000129 ! C. elegans behavioral assay: video recording + +[Term] +id: EMPTY:0000258 +name: fluorescence imaging data +def: "An image or video acquired using fluorescence microscopy." [] + diff --git a/empty-simple.owl b/empty-simple.owl index dd8e819..be112aa 100644 --- a/empty-simple.owl +++ b/empty-simple.owl @@ -10,13 +10,13 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences. Experimental Measurements Purposes and Treatments ontologY EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. Release 2025-07-10 - 2026-02-23 + 2026-04-04 @@ -35,8 +35,11 @@ + A property representing the English language definitions of what NCI means by the concept. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. + English language definitions of what NCI means by the concept. These are limited to 1024 characters. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. + The official definition. definition definition textual definition @@ -152,7 +155,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (north) - entries @@ -162,7 +165,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (south) - entries @@ -172,7 +175,7 @@ - In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count + In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count elevated plus maze: open arm total entries @@ -182,7 +185,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count elevated plus maze: open arm (north) - head entries @@ -192,7 +195,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count elevated plus maze: open arm (south) - head entries @@ -202,7 +205,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count elevated plus maze: open arm total head entries @@ -213,7 +216,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - time @@ -224,7 +227,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time @@ -235,7 +238,7 @@ - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds elevated plus maze: open arm total time @@ -245,7 +248,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: % elevated plus maze: open arm total - percent time during test duration @@ -256,7 +259,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - latency to first entry @@ -267,7 +270,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - latency to first entry @@ -278,7 +281,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds elevated plus maze: open arm total latency to first entry @@ -289,7 +292,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (north) - time moving towards @@ -300,7 +303,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (south) - time moving towards @@ -311,7 +314,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds elevated plus maze: open arm total time moving towards @@ -322,7 +325,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds elevated plus maze: open arm (north) - time freezing @@ -333,7 +336,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time freezing @@ -344,7 +347,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds elevated plus maze: open arm total time freezing @@ -354,7 +357,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count elevated plus maze: closed arm (west) - entries @@ -364,7 +367,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count elevated plus maze: closed arm (east) - entries @@ -374,7 +377,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count elevated plus maze: closed arm total entries @@ -384,7 +387,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count elevated plus maze: closed arm (west) - head entries @@ -394,7 +397,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count elevated plus maze: closed arm (east) - head entries @@ -404,7 +407,7 @@ - In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count elevated plus maze: closed arm total head entries @@ -415,7 +418,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time @@ -426,7 +429,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time @@ -437,7 +440,7 @@ - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds elevated plus maze: closed arm total time @@ -447,7 +450,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: % elevated plus maze: closed arm total - percent time during test duration @@ -458,7 +461,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - latency to first entry @@ -469,7 +472,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - latency to first entry @@ -480,7 +483,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total latency to first entry @@ -491,7 +494,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time moving towards @@ -502,7 +505,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time moving towards @@ -513,7 +516,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time moving towards @@ -524,7 +527,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time freezing @@ -535,7 +538,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time freezing @@ -546,7 +549,7 @@ - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time freezing @@ -556,7 +559,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count elevated plus maze: center - entries @@ -566,7 +569,7 @@ - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count elevated plus maze: center - head entries @@ -577,7 +580,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds elevated plus maze: center - time @@ -587,7 +590,7 @@ - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: % elevated plus maze: center - percent time during test duration @@ -598,7 +601,7 @@ - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds elevated plus maze: center - latency to first entry @@ -609,7 +612,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds elevated plus maze: center - time moving towards @@ -620,7 +623,7 @@ - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds elevated plus maze: center - time freezing @@ -651,7 +654,7 @@ - In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score. + In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score. fear-potentiated startle: baseline acoustic startle response amplitude @@ -702,7 +705,7 @@ - Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string + Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string fear-potentiated startle: apparatus chamber identifier @@ -722,7 +725,7 @@ - The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count + The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count acoustic startle response: number of samples @@ -732,7 +735,7 @@ - The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz) + The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz) acoustic startle response: sampling rate @@ -743,7 +746,7 @@ - The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration. + The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration. acoustic startle response: startle window onset amplitude @@ -754,7 +757,7 @@ - The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units. + The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units. acoustic startle response: maximum amplitude @@ -765,7 +768,7 @@ - The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms) + The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms) acoustic startle response: time to maximum amplitude @@ -776,7 +779,7 @@ - The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units. + The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units. acoustic startle response: average amplitude @@ -809,7 +812,7 @@ - In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds elevated plus maze: test duration @@ -1906,7 +1909,7 @@ - The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds + The number of seconds the individual spent freezing during a given period of time. Unit: seconds contextual fear conditioning: time freezing @@ -1917,7 +1920,7 @@ - In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds + In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds contextual fear conditioning: block duration @@ -2456,6 +2459,284 @@ A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation. unknown electronic file type + + + + + + + + A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans. + C. elegans chemotaxis assay parameter + + + + + + + + + A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans. + C. elegans chemotaxis assay parameter: chemoattractant mixture table + + + + + + + + + The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL). + C. elegans chemotaxis assay parameter: chemoattractant mixture volume + + + + + + + + + The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes. + C. elegans chemotaxis assay parameter: assay duration + + + + + + + + + A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source. + C. elegans chemotaxis assay measurement + + + + + + + + + A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1. + chemotactic ratio + C. elegans chemotaxis assay measurement: McCutcheon index + + + + + + + + + The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s). + C. elegans chemotaxis assay measurement: mean velocity + + + + + + + + + A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository. + investigator-defined strain + + + + + + + + + A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures. + C. elegans strain + + + + + + + + + A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD] + BAB9001 + + + + + + + + + A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD] + BAB9002 + + + + + + + + + A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD] + TM5848 + + + + + + + + + A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD] + PT3602 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD] + BAB9003 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9004 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9005 + + + + + + + + + fluorescence imaging measurement + fluorescence imaging measurement + + + + + + + + + Mean fluorescence intensity. Unit: arbitrary units (AU) + mean fluorescence intensity + + + + + + + + + A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count + fluorescent punctal count + + + + + + + + + A specific parameter related to fluorescence imaging acquisition or assay. + fluorescence imaging parameter + + + + + + + + + fluorescence target ontology identifier + fluorescence target ontology identifier + + + + + + + + + fluorescence target name + fluorescence target name + + + + + + + + A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites. + SnapGene file format + + + + + + + + A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays. + Escherichia coli OP50: heat-killed + + + + + + + + + Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper. + C. elegans transfer method: M9 buffer wash + + + + + + + + + Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate. + C. elegans transfer method: titanium pick + + + + + + + + + A video recording capturing the behavior of C. elegans during a chemotaxis assay. + C. elegans chemotaxis assay: video recording + + + + + + + + An image or video acquired using fluorescence microscopy. + fluorescence imaging data + diff --git a/empty.json b/empty.json index 9aee92e..b42a39d 100644 --- a/empty.json +++ b/empty.json @@ -16,12 +16,12 @@ "val" : "EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use." }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2026-02-23" + "val" : "2026-04-04" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", "val" : "Release 2025-07-10" } ], - "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-02-23/empty.json" + "version" : "http://purl.obolibrary.org/obo/empty/releases/2026-04-04/empty.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/BFO_0000001", @@ -129,7 +129,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." + "val" : "Elementary particle not affected by the strong force having a spin ½, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." } } }, { @@ -138,7 +138,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." + "val" : "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." } } }, { @@ -165,7 +165,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any steroid that has beta-configuration at position 5." + "val" : "Any steroid that has β-configuration at position 5." } } }, { @@ -174,7 +174,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." + "val" : "A Brønsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." } } }, { @@ -183,7 +183,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration." + "val" : "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5α-configuration." } } }, { @@ -192,7 +192,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa)." + "val" : "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0°C and 100 kPa)." } } }, { @@ -214,7 +214,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." + "val" : "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." } } }, { @@ -223,7 +223,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -253,6 +253,15 @@ "val" : "A simple monocarboxylic acid containing two carbons." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "lbl" : "hydron", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes)." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_15379", "lbl" : "dioxygen", @@ -263,7 +272,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals." + "val" : "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n ≥ 2) and their intramolecular hemiacetals." } } }, { @@ -272,7 +281,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid having L-configuration at the alpha-carbon." + "val" : "Any α-amino acid having L-configuration at the α-carbon." } } }, { @@ -290,7 +299,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An optically active form of glutamic acid having D-configuration." + "val" : "An optically active form of glutamic acid having D-configuration." } } }, { @@ -308,7 +317,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An optically active form of glutamic acid having L-configuration." + "val" : "An optically active form of glutamic acid having L-configuration." } } }, { @@ -368,7 +377,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_166902", "lbl" : "noradrenaline(1+)", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_16733", "lbl" : "D-alpha-amino acid", @@ -397,7 +411,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4." + "val" : "A γ-amino acid that is butanoic acid with the amino substituent located at C-4." } } }, { @@ -415,7 +429,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." + "val" : "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." } } }, { @@ -460,7 +474,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any D-aldose having a chain of six carbon atoms in the molecule." + "val" : "Any D-aldose having a chain of six carbon atoms in the molecule." } } }, { @@ -469,7 +483,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A glucose with D-configuration." + "val" : "A glucose with D-configuration." } } }, { @@ -541,7 +555,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2." + "val" : "An α-amino acid that is glutaric acid bearing a single amino substituent at position 2." } } }, { @@ -559,7 +573,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The R-enantiomer of noradrenaline." + "val" : "The R-enantiomer of noradrenaline." } } }, { @@ -616,7 +630,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base)." + "val" : "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Brønsted base) or with the vacant orbital of some other molecular entity (Lewis base)." } } }, { @@ -629,7 +643,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any compound that produces a peak used as reference frequency in the delta chemical shift scale." + "val" : "Any compound that produces a peak used as reference frequency in the δ chemical shift scale." } } }, { @@ -672,6 +686,15 @@ "val" : "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "lbl" : "(S)-noradrenaline(1+)", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An organic cation that is the conjugate acid of (S)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_23449", "lbl" : "cyclic peptide", @@ -704,7 +727,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." + "val" : "An L-α-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." } } }, { @@ -713,7 +736,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." + "val" : "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2)." } } }, { @@ -789,7 +812,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-))." + "val" : "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH)." } } }, { @@ -798,7 +821,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position." + "val" : "Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position." } } }, { @@ -903,7 +926,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." + "val" : "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (‒CH2‒CH2‒). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." } } }, { @@ -1017,7 +1040,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." + "val" : "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." } } }, { @@ -1140,7 +1163,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." + "val" : "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." } } }, { @@ -1233,7 +1256,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -1242,7 +1265,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" + "val" : "An α-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" } } }, { @@ -1251,7 +1274,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dicarboxylic acid dianion that is the conjugate base of glutamate(1-)." + "val" : "A dicarboxylic acid dianion that is the conjugate base of glutamate(1−)." } } }, { @@ -1260,7 +1283,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." + "val" : "An L-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." } } }, { @@ -1291,7 +1314,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid." + "val" : "An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid." } } }, { @@ -1309,7 +1332,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration." + "val" : "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration." } } }, { @@ -1410,6 +1433,10 @@ "val" : "A chemical entity constituting the smallest component of an element having the chemical properties of the element." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "lbl" : "monoatomic hydrogen", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_33252", "lbl" : "atomic nucleus", @@ -1446,6 +1473,10 @@ "val" : "A molecular entity all atoms of which have the same atomic number." } } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "lbl" : "elemental hydrogen", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_33262", "lbl" : "elemental oxygen", @@ -1549,7 +1580,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl." + "val" : "An ester of a carboxylic acid, R1C(=O)OR2, where R1 = H or organyl and R2 = organyl." } } }, { @@ -1600,7 +1631,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid anion obtained by deprotonation of any alpha-amino acid." + "val" : "An amino-acid anion obtained by deprotonation of any α-amino acid." } } }, { @@ -1622,7 +1653,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any compound containing an o-diphenol component." + "val" : "Any compound containing an o-diphenol component." } } }, { @@ -1653,7 +1684,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The S-enantiomer of noradrenaline." + "val" : "The S-enantiomer of noradrenaline." } } }, { @@ -1662,7 +1693,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." + "val" : "A carbon oxoacid acid carrying at least one ‒C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." } } }, { @@ -1710,7 +1741,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character." + "val" : "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekulé structure) is said to possess aromatic character." } } }, { @@ -1820,7 +1851,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group." + "val" : "An amino acid in which the amino group is located on the carbon atom at the position α to the carboxy group." } } }, { @@ -1829,7 +1860,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group." + "val" : "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group." } } }, { @@ -1856,7 +1887,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid residue derived from an alpha-amino acid." + "val" : "An amino-acid residue derived from an α-amino acid." } } }, { @@ -1903,7 +1934,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2)." + "val" : "A heterocyclic compound formally derived from an arene by replacement of one or more methine (‒C=) and/or vinylene (‒CH=CH‒) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous π-electron system characteristic of aromatic systems and a number of out-of-plane π-electrons corresponding to the Hückel rule (4n+2)." } } }, { @@ -2019,7 +2050,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." + "val" : "A derivative of ammonium, NH4+, in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." } } }, { @@ -2028,7 +2059,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc)." + "val" : "A derivative of ammonium, NH4+, in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc)." } } }, { @@ -2077,7 +2108,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." + "val" : "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H‒[CHOH]n‒C(=O)[CHOH]m‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." } } }, { @@ -2138,7 +2169,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An agent that selectively binds to and activates alpha-adrenergic receptors." + "val" : "An agent that selectively binds to and activates α-adrenergic receptors." } } }, { @@ -2147,7 +2178,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n." + "val" : "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOyn for some integers x, y and n." } } }, { @@ -2251,7 +2282,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Members of the class of cholanic acids based on a 5beta-cholane skeleton." + "val" : "Members of the class of cholanic acids based on a 5β-cholane skeleton." } } }, { @@ -2273,7 +2304,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin)." + "val" : "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek λεπτοσ (small, thin)." } } }, { @@ -2282,7 +2313,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy)." + "val" : "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek βαρυσ (heavy)." } } }, { @@ -2476,7 +2507,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." + "val" : "An acid is a molecular entity capable of donating a hydron (Brønsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." } } }, { @@ -2494,7 +2525,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom." + "val" : "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the ‒C(=O)NH2 group including its carbon atom." } } }, { @@ -2617,7 +2648,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity capable of donating a hydron to an acceptor (Bronsted base)." + "val" : "A molecular entity capable of donating a hydron to an acceptor (Brønsted base)." } } }, { @@ -2626,7 +2657,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular entity capable of accepting a hydron from a donor (Bronsted acid)." + "val" : "A molecular entity capable of accepting a hydron from a donor (Brønsted acid)." } } }, { @@ -2657,7 +2688,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A glucopyranose having D-configuration." + "val" : "A glucopyranose having D-configuration." } } }, { @@ -2666,7 +2697,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A hexose that has D-configuration at position 5." + "val" : "A hexose that has D-configuration at position 5." } } }, { @@ -2740,7 +2771,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any drug that acts on an alpha-adrenergic receptor." + "val" : "Any drug that acts on an α-adrenergic receptor." } } }, { @@ -2943,7 +2974,12 @@ }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_52211", "lbl" : "physiological role", - "type" : "CLASS" + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A biological role relating to the normal mechanisms and their interactions within a living system." + } + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_52217", "lbl" : "pharmaceutical", @@ -3040,7 +3076,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." + "val" : "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." } } }, { @@ -3049,7 +3085,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any fatty acid anion in which there is no C-C unsaturation." + "val" : "Any fatty acid anion in which there is no C‒C unsaturation." } } }, { @@ -3067,7 +3103,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic anion of general formula RS(=O)2O(-) where R is an organyl group." + "val" : "An organic anion of general formula RS(=O)2O(−) where R is an organyl group." } } }, { @@ -3112,7 +3148,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group." + "val" : "Conjugate base of an L-α-amino acid arising from deprotonation of the C-1 carboxy group." } } }, { @@ -3121,7 +3157,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of an L-α-amino acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3130,7 +3166,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of a D-α-amino acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3139,7 +3175,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group." + "val" : "Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group." } } }, { @@ -3202,7 +3238,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid anion in which the parent amino acid has D-configuration." + "val" : "Any α-amino acid anion in which the parent amino acid has D-configuration." } } }, { @@ -3337,7 +3373,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic molecular entity containing a single carbon atom (C1)." + "val" : "An organic molecular entity containing a single carbon atom (C1)." } } }, { @@ -3454,7 +3490,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group." + "val" : "An amino-acid anion in which the amino group is situated γ- to the carboxylate group." } } }, { @@ -3463,7 +3499,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3." + "val" : "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." } } }, { @@ -3508,7 +3544,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*)." + "val" : "A ligase inhibitor that interferes with the action of a CN bond-forming ligase (EC 6.3.*.*)." } } }, { @@ -3616,7 +3652,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." + "val" : "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." } } }, { @@ -3724,7 +3760,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." + "val" : "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any α-amino acid; major species at pH 7.3." } } }, { @@ -3796,7 +3832,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." + "val" : "Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." } } }, { @@ -3814,7 +3850,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." + "val" : "Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids." } } }, { @@ -7724,7 +7760,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -7733,7 +7769,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" } } }, { @@ -7742,7 +7778,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" } } }, { @@ -7751,7 +7787,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" } } }, { @@ -7760,7 +7796,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" } } }, { @@ -7769,7 +7805,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" } } }, { @@ -7778,7 +7814,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -7787,7 +7823,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7796,7 +7832,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" } } }, { @@ -7805,7 +7841,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" } } }, { @@ -7814,7 +7850,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" } } }, { @@ -7823,7 +7859,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7832,7 +7868,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" } } }, { @@ -7841,7 +7877,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -7850,7 +7886,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" } } }, { @@ -7859,7 +7895,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" } } }, { @@ -7868,7 +7904,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" } } }, { @@ -7877,7 +7913,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" } } }, { @@ -7886,7 +7922,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" } } }, { @@ -7895,7 +7931,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" } } }, { @@ -7904,7 +7940,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" } } }, { @@ -7913,7 +7949,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" } } }, { @@ -7922,7 +7958,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" } } }, { @@ -7931,7 +7967,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" } } }, { @@ -7940,7 +7976,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" } } }, { @@ -7949,7 +7985,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -7958,7 +7994,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -7967,7 +8003,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" } } }, { @@ -7976,7 +8012,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" } } }, { @@ -7985,7 +8021,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -7994,7 +8030,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8003,7 +8039,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8012,7 +8048,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -8021,7 +8057,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8030,7 +8066,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8039,7 +8075,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" } } }, { @@ -8048,7 +8084,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" } } }, { @@ -8057,7 +8093,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" } } }, { @@ -8066,7 +8102,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" } } }, { @@ -8075,7 +8111,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" + "val" : "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" } } }, { @@ -8084,7 +8120,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" } } }, { @@ -8093,7 +8129,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" + "val" : "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" } } }, { @@ -8102,7 +8138,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" } } }, { @@ -8111,7 +8147,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" } } }, { @@ -8120,7 +8156,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" } } }, { @@ -8147,7 +8183,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." + "val" : "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." } } }, { @@ -8192,7 +8228,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" + "val" : "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" } } }, { @@ -8210,7 +8246,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" + "val" : "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" } } }, { @@ -8219,7 +8255,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" + "val" : "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" } } }, { @@ -8228,7 +8264,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." + "val" : "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." } } }, { @@ -8237,7 +8273,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." } } }, { @@ -8246,7 +8282,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" + "val" : "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" } } }, { @@ -8255,7 +8291,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." + "val" : "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." } } }, { @@ -8282,7 +8318,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" + "val" : "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" } } }, { @@ -9259,7 +9295,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" + "val" : "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" } } }, { @@ -9268,7 +9304,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" + "val" : "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" } } }, { @@ -9746,6 +9782,262 @@ "val" : "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." } } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000231", + "lbl" : "C. elegans chemotaxis assay parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000232", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture table", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000233", + "lbl" : "C. elegans chemotaxis assay parameter: chemoattractant mixture volume", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000234", + "lbl" : "C. elegans chemotaxis assay parameter: assay duration", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000235", + "lbl" : "C. elegans chemotaxis assay measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000236", + "lbl" : "C. elegans chemotaxis assay measurement: McCutcheon index", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "chemotactic ratio" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000237", + "lbl" : "C. elegans chemotaxis assay measurement: mean velocity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000238", + "lbl" : "investigator-defined strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000239", + "lbl" : "C. elegans strain", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000240", + "lbl" : "BAB9001", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000241", + "lbl" : "BAB9002", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000242", + "lbl" : "TM5848", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000243", + "lbl" : "PT3602", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000244", + "lbl" : "BAB9003", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000245", + "lbl" : "BAB9004", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000246", + "lbl" : "BAB9005", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000247", + "lbl" : "fluorescence imaging measurement", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence imaging measurement" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000248", + "lbl" : "mean fluorescence intensity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Mean fluorescence intensity. Unit: arbitrary units (AU)" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000249", + "lbl" : "fluorescent punctal count", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000250", + "lbl" : "fluorescence imaging parameter", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A specific parameter related to fluorescence imaging acquisition or assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000251", + "lbl" : "fluorescence target ontology identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target ontology identifier" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000252", + "lbl" : "fluorescence target name", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "fluorescence target name" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000253", + "lbl" : "SnapGene file format", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000254", + "lbl" : "Escherichia coli OP50: heat-killed", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000255", + "lbl" : "C. elegans transfer method: M9 buffer wash", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000256", + "lbl" : "C. elegans transfer method: titanium pick", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000257", + "lbl" : "C. elegans chemotaxis assay: video recording", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A video recording capturing the behavior of C. elegans during a chemotaxis assay." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/EMPTY_0000258", + "lbl" : "fluorescence imaging data", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An image or video acquired using fluorescence microscopy." + } + } }, { "id" : "http://purl.obolibrary.org/obo/ENVO_00000447", "type" : "CLASS" @@ -15958,6 +16250,10 @@ "id" : "http://purl.obolibrary.org/obo/GO_0010070", "lbl" : "zygote asymmetric cell division", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0010155", + "lbl" : "regulation of proton transport", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0010160", "lbl" : "formation of animal organ boundary", @@ -16958,14 +17254,6 @@ "id" : "http://purl.obolibrary.org/obo/GO_0014874", "lbl" : "response to stimulus involved in regulation of muscle adaptation", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0014878", - "lbl" : "response to electrical stimulus involved in regulation of muscle adaptation", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0014879", - "lbl" : "detection of electrical stimulus involved in regulation of muscle adaptation", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0014887", "lbl" : "cardiac muscle adaptation", @@ -17024,6 +17312,19 @@ "val" : "ion transporter activity" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0015078", + "lbl" : "proton transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion transmembrane transporter activity" + }, { + "pred" : "hasExactSynonym", + "val" : "proton transporter activity" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015081", "lbl" : "sodium ion transmembrane transporter activity", @@ -24603,7 +24904,11 @@ "meta" : { "definition" : { "val" : "Any constituent part of a virion, a complete fully infectious extracellular virus particle." - } + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "virion part" + } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0044458", @@ -29824,10 +30129,6 @@ "val" : "upregulation of pigment cell differentiation" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050952", - "lbl" : "sensory perception of electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0050953", "lbl" : "sensory perception of light stimulus", @@ -29845,19 +30146,6 @@ "val" : "perception of mechanical stimulus" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050956", - "lbl" : "electroception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electroception sense" - }, { - "pred" : "hasExactSynonym", - "val" : "electroceptive sense" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0050962", "lbl" : "detection of light stimulus involved in sensory perception", @@ -29883,66 +30171,6 @@ "val" : "sensory transduction of light stimulus during sensory perception" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050963", - "lbl" : "detection of electrical stimulus involved in sensory perception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory detection of electrical stimulus during sensory perception" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory perception, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory perception, sensory transduction of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory transduction of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "sensory transduction of electrical stimulus during sensory perception" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050964", - "lbl" : "detection of electrical stimulus involved in electroception", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electroception, detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory transduction" - }, { - "pred" : "hasExactSynonym", - "val" : "electroception, sensory transduction of electrical stimulus" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050967", - "lbl" : "detection of electrical stimulus involved in sensory perception of pain", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "perception of pain, detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "perception of pain, sensory detection of electrical stimulus" - }, { - "pred" : "hasExactSynonym", - "val" : "perception of pain, sensory transduction of electrical stimulus" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0050968", "lbl" : "detection of chemical stimulus involved in sensory perception of pain", @@ -29984,10 +30212,6 @@ "val" : "tactition" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050981", - "lbl" : "detection of electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0050994", "lbl" : "regulation of lipid catabolic process", @@ -31051,10 +31275,6 @@ "val" : "upregulation of neurotransmitter transport" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051602", - "lbl" : "response to electrical stimulus", - "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/GO_0051606", "lbl" : "detection of stimulus", @@ -35960,6 +36180,16 @@ "id" : "http://purl.obolibrary.org/obo/GO_0120025", "lbl" : "plasma membrane bounded cell projection", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0120029", + "lbl" : "proton export across plasma membrane", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion export across plasma membrane" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0120031", "lbl" : "plasma membrane bounded cell projection assembly", @@ -37574,6 +37804,19 @@ "id" : "http://purl.obolibrary.org/obo/GO_1902570", "lbl" : "protein localization to nucleolus", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1902600", + "lbl" : "proton transmembrane transport", + "type" : "CLASS", + "meta" : { + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrogen ion transmembrane transport" + }, { + "pred" : "hasExactSynonym", + "val" : "hydrogen transmembrane transport" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1902679", "lbl" : "negative regulation of RNA biosynthetic process", @@ -40666,6 +40909,14 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1206795", "lbl" : "Lophotrochozoa", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1224", + "lbl" : "Pseudomonadota", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_1236", + "lbl" : "Gammaproteobacteria", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_124129", "lbl" : "Acipenserinae", @@ -40840,9 +41091,6 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "eucaryotes" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "eukaryotes" } ] @@ -40957,6 +41205,9 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "animals" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "metazoans" }, { @@ -41004,6 +41255,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3378", "lbl" : "Gnetales", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3379134", + "lbl" : "Pseudomonadati", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_3398", "lbl" : "Magnoliopsida", @@ -41150,6 +41405,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_50557", "lbl" : "Insecta", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_543", + "lbl" : "Enterobacteriaceae", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_554915", "lbl" : "Amoebozoa", @@ -41162,6 +41421,14 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_55885", "lbl" : "Peloderinae", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_561", + "lbl" : "Escherichia", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_562", + "lbl" : "Escherichia coli", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_5782", "lbl" : "Dictyostelium", @@ -41222,6 +41489,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_6362", "lbl" : "Sabellida", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_637912", + "lbl" : "Escherichia coli OP50", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_6656", "lbl" : "Arthropoda", @@ -41443,6 +41714,10 @@ "id" : "http://purl.obolibrary.org/obo/NCBITaxon_89593", "lbl" : "Craniata ", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_91347", + "lbl" : "Enterobacterales", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9254", "lbl" : "Prototheria", @@ -41527,10 +41802,22 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C14376", "lbl" : "Other Organism Groupings", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16203", + "lbl" : "Clinical or Research Activity", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C16847", "lbl" : "Technique", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16853", + "lbl" : "Microscopy", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C16856", + "lbl" : "Fluorescence Microscopy", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C17187", "lbl" : "Technology", @@ -41539,10 +41826,18 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C172272", "lbl" : "Electronic File Content Type", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C17369", + "lbl" : "Imaging Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C179817", "lbl" : "Velocity", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C17995", + "lbl" : "Light Microscopy", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C18141", "lbl" : "Computer Sciences", @@ -41599,6 +41894,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C25206", "lbl" : "Temperature", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C25218", + "lbl" : "Clinical Intervention or Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C25284", "lbl" : "Type", @@ -41607,6 +41906,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C25285", "lbl" : "Diameter", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C25294", + "lbl" : "Laboratory Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C25335", "lbl" : "Volume", @@ -41699,6 +42002,10 @@ "id" : "http://purl.obolibrary.org/obo/NCIT_C73706", "lbl" : "Spatial Qualifier", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCIT_C74957", + "lbl" : "Mixed Category Laboratory Procedure", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/NCIT_C85776", "lbl" : "Optical Density Measurement", @@ -44550,6 +44857,10 @@ "id" : "http://purl.obolibrary.org/obo/UBERON_0000000", "lbl" : "processual entity", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/UBERON_0000001", + "lbl" : "gross anatomical part", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/UBERON_0000005", "lbl" : "chemosensory organ", @@ -44765,6 +45076,9 @@ "lbl" : "anatomical structure", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." + }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological structure" @@ -55591,19 +55905,6 @@ "id" : "http://purl.obolibrary.org/obo/UBERON_0010499", "lbl" : "pseudostratified ciliated columnar epithelium", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "lbl" : "electroreceptor organ", - "type" : "CLASS", - "meta" : { - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "electric sense organ" - }, { - "pred" : "hasExactSynonym", - "val" : "electroreception organ" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/UBERON_0010522", "lbl" : "replacement element", @@ -58544,6 +58845,10 @@ "val" : "rectal lamina propria" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "lbl" : "epithelium of anorectum", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/UO_0000001", "lbl" : "length unit", @@ -58584,6 +58889,12 @@ "id" : "http://purl.obolibrary.org/obo/UO_0000280", "lbl" : "rate unit", "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/format_1929", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon:637912", + "type" : "CLASS" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass", "lbl" : "Obsolete Class", @@ -61132,6 +61443,89 @@ "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." } } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018030", + "lbl" : "chemical relationship", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018033", + "lbl" : "is deprotonated form of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018034", + "lbl" : "is protonated form of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018036", + "lbl" : "is tautomer of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Two chemicals are tautomers if they can be readily interconverted.\n\nThis commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "is desmotrope of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018037", + "lbl" : "is substitutent group from", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018038", + "lbl" : "has functional parent", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. \n\nFor example, the relationship between a salt and a freebased compound is a \"has functional parent\" relationship." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018039", + "lbl" : "is enantiomer of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center.\n\nA chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers)." + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "is optical isomer of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0018040", + "lbl" : "has parent hydride", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B." + } + } }, { "id" : "http://purl.obolibrary.org/obo/RO_0019000", "lbl" : "regulates characteristic", @@ -61232,10 +61626,6 @@ "id" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", "type" : "PROPERTY", "propertyType" : "OBJECT" - }, { - "id" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", - "type" : "PROPERTY", - "propertyType" : "OBJECT" }, { "id" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", "type" : "PROPERTY", @@ -64469,7 +64859,7 @@ "propertyType" : "ANNOTATION", "meta" : { "definition" : { - "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + "val" : "The official definition." } } }, { @@ -64592,6 +64982,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_63551" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16336" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_132153", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64624,6 +65018,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28616" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_13941", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64634,7 +65032,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_26666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_140601", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_78115" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_142163", @@ -64654,12 +65052,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_14321", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_14321", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15339", "pred" : "is_a", @@ -64716,10 +65114,30 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_83056" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_30089" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15366", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30089" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25414" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33251" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33252" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15378", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_60242" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "is_a", @@ -64760,6 +65178,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77974" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29793" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15379", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64774,11 +65196,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15705", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59814" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15705", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59869" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15841", @@ -64802,11 +65224,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15986", @@ -64854,11 +65276,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", @@ -64896,6 +65318,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_78433" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28938" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29337" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -64928,6 +65358,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_45696" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16189", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -64944,6 +65378,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_132153" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16336", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -64976,6 +65414,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_60466" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16670", "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", @@ -64990,7 +65432,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35274" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_166902", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33569" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", @@ -64998,11 +65440,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_83925" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_60895" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59871" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_167559", @@ -65036,6 +65478,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_57887" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16765", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -65066,16 +65512,16 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30566" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59888" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16865", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16990", "pred" : "is_a", @@ -65102,7 +65548,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16990", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_57977" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17087", @@ -65154,12 +65600,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17544", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_41609" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28976" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17544", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_28976" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_41609" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17608", "pred" : "is_a", @@ -65198,7 +65644,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17968", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_30772" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18059", @@ -65242,7 +65688,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18237", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18282", @@ -65274,11 +65720,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18357", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_72587" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_18357", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33571" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_20664", @@ -65360,6 +65806,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_27207" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28616" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_23004", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -65376,6 +65826,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_23367", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24431" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_166902" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33571" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_234420", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_72587" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_23449", "pred" : "is_a", @@ -65459,7 +65921,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_36342" + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15378" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33253" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24636", "pred" : "is_a", @@ -65490,7 +65956,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_36248" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24663", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", "obj" : "http://purl.obolibrary.org/obo/CHEBI_36238" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24828", @@ -65532,10 +65998,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_24866", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_22563" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_24866", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_36916" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24867", "pred" : "is_a", @@ -65592,6 +66054,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_35757" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_25384", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65648,6 +66114,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_26820" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_58958" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_25704", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65694,7 +66164,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26167", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", "obj" : "http://purl.obolibrary.org/obo/CHEBI_62031" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26607", @@ -65706,7 +66176,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26666", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_58951" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26708", @@ -65788,6 +66258,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35223" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_45696" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_26836", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65864,6 +66338,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_13941" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28616", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65900,6 +66378,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_350546" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16765" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28790", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -65918,7 +66404,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35757" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28868", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", @@ -65948,6 +66434,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28938", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -65974,7 +66464,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_28976", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17544" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", @@ -65984,6 +66474,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35406" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29067", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66020,6 +66514,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_79389" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29340" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29337", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66036,6 +66538,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_79388" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29337" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29340", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66044,6 +66550,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33693" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15379" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66066,15 +66576,15 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", @@ -66082,15 +66592,15 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", @@ -66102,7 +66612,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", @@ -66114,11 +66624,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_59814" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", @@ -66126,11 +66636,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", @@ -66144,6 +66654,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66162,12 +66676,12 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30566", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16865" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30566", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_16865" + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30772", "pred" : "is_a", @@ -66186,7 +66700,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_84087" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30772", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17968" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_3098", @@ -66220,6 +66734,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37577" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24833" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33241", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -66248,6 +66766,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24433" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64769" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64775" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33247", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66264,14 +66790,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_24431" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_10545" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33250", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33252" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33238" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33251", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33260" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33252", "pred" : "is_a", @@ -66296,6 +66826,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33259", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_23367" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24835" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33259" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33260", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33608" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33262", "pred" : "is_a", @@ -66432,6 +66974,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33558", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66466,7 +67012,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_76967" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33569", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_166902" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33570", @@ -66478,7 +67024,11 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33569" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33571", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_234420" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33571", + "pred" : "http://purl.obolibrary.org/obo/RO_0018039", "obj" : "http://purl.obolibrary.org/obo/CHEBI_18357" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", @@ -66496,6 +67046,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_46883" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33575", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66524,10 +67078,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33608", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33674" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33608", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_49637" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33635", "pred" : "is_a", @@ -66568,10 +67118,6 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33674", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33579" - }, { - "sub" : "http://purl.obolibrary.org/obo/CHEBI_33674", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_33559" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33675", "pred" : "is_a", @@ -66648,6 +67194,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33702" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33703", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66656,6 +67206,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33719" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33558" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", + "pred" : "http://purl.obolibrary.org/obo/RO_0018036", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_78608" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33704", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66674,12 +67236,24 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_83820" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33707", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_71666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33247" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_58942" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_64898" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33708", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66700,6 +67274,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50047" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33703" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_37022" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33709", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66712,6 +67294,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33710", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -66720,6 +67306,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33703" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33719", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66732,6 +67322,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33721" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33720", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66740,6 +67334,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33720" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33721", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -66824,6 +67422,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28790" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_350546", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -66868,6 +67470,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_51143" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_28938" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35274", "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", @@ -66910,7 +67516,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_25384" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35366", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35381", @@ -67006,7 +67612,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35692", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35693" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35693", @@ -67014,7 +67620,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35693", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35692" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35701", @@ -67044,6 +67650,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25384" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_35757", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67070,7 +67680,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35341" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36078", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35519" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36080", @@ -67122,7 +67732,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_36278" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36248", - "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", "obj" : "http://purl.obolibrary.org/obo/CHEBI_20664" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_36277", @@ -67276,6 +67886,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35352" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37022", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67336,6 +67950,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33424" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_26836" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37826", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67344,6 +67962,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_22221" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", + "pred" : "http://purl.obolibrary.org/obo/RO_0018037", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33575" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_37838", "pred" : "http://purl.obolibrary.org/obo/chebi#is_substituent_group_from", @@ -67450,7 +68072,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_59202" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_39418", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_58954" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_41609", @@ -67458,7 +68080,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35604" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_41609", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_17544" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_4167", @@ -67496,6 +68118,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33482" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_26836" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16189" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_45696", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67524,6 +68154,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33308" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_47622", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67538,7 +68172,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_64709" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_47891", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50160" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_48154", @@ -67592,6 +68226,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_39142" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", + "pred" : "http://purl.obolibrary.org/obo/RO_0018040", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16134" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50047", "pred" : "http://purl.obolibrary.org/obo/chebi#has_parent_hydride", @@ -67602,7 +68240,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_29067" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50160", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_47891" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50297", @@ -67664,6 +68302,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50047" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_65296" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50994", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", @@ -67764,6 +68406,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16765" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_57887", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67782,12 +68428,16 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_57977", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16990" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_64769" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33708" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58942", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", @@ -67798,7 +68448,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58951", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_26666" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58953", @@ -67810,7 +68460,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_58953" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58954", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_39418" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", @@ -67820,6 +68470,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33482" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25704" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", + "pred" : "http://purl.obolibrary.org/obo/RO_0018038", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16189" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_58958", "pred" : "http://purl.obolibrary.org/obo/chebi#has_functional_parent", @@ -67834,7 +68492,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_35366" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59202", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018034", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59203" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59203", @@ -67842,7 +68500,7 @@ "obj" : "http://purl.obolibrary.org/obo/CHEBI_28868" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59203", - "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "pred" : "http://purl.obolibrary.org/obo/RO_0018033", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59202" }, { "sub" : 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"http://purl.obolibrary.org/obo/UBERON_0000465" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000005", "pred" : "is_a", @@ -125240,6 +126118,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000102", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002048" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "is_a", @@ -125248,6 +126130,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000104", "pred" : "http://purl.obolibrary.org/obo/RO_0002230", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000071" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000105", "pred" : "is_a", @@ -125600,10 +126486,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004921" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001155" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000168", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -126147,7 +127029,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000463", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000463", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -126220,6 +127102,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0000475", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000468" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0000476", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000476", "pred" : "is_a", @@ -139264,10 +140150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0013522" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001555" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004921", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -140151,7 +141033,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005423", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005423", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", @@ -141260,10 +142142,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002090" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0006071" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006076", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -141272,10 +142150,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000075" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0001130" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006077", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -144336,10 +145210,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0006077" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0002100" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0009568", "pred" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", @@ -146140,14 +147010,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0010499", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0010498" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000020" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0050964" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0010522", "pred" : "is_a", @@ -147916,10 +148778,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000064" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000025" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0013522", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -150495,7 +151353,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0036215", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000465" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000001" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0036215", "pred" : "http://purl.obolibrary.org/obo/RO_0002007", @@ -151388,6 +152246,14 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_8600140", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001052" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0001278" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_8410050" }, { "sub" : "http://purl.obolibrary.org/obo/UO_0000001", "pred" : "is_a", @@ -154112,6 +154978,34 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0015016", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002104" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018033", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018034", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018036", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018037", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018038", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018039", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018040", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018030" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0019000", "pred" : "subPropertyOf", @@ -154188,6 +155082,10 @@ "sub" : "http://purl.obolibrary.org/obo/uberon/core#proximally_connected_to", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/uberon/core#transitively_proximally_connected_to" + }, { + "sub" : "http://purl.obolibrary.org/obo/uberon/core#subdivision_of", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/BFO_0000050" }, { "sub" : "http://purl.obolibrary.org/obo/BFO_0000050", "pred" : "inverseOf", @@ -154400,6 +155298,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0003000", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0003001" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0018033", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0018034" }, { "sub" : "http://purl.obolibrary.org/obo/uberon/core#distally_connected_to", "pred" : "inverseOf", @@ -162425,6 +163327,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000365" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010155", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_1902600" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010160", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048859" ], @@ -163670,20 +164579,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014878", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0051602" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014879", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0043502" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0014887", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0043500" ], @@ -163768,6 +164663,16 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24867" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015078", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005215" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002342", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015081", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -171991,27 +172896,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007600" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050963", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0007600" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050964", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0050956" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050967", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050981" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0019233" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050968", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009593" ], @@ -178465,6 +179349,22 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0098590" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120029", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002338", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005829" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005576" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002342", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005886" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120031", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022607" ], @@ -180600,6 +181500,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005730" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902600", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0055085" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15378" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902679", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -193813,13 +194720,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000067" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0010521", - "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000062" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0050964" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0010527", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0002558" ], @@ -196782,6 +197682,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001052" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_8850001", + "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0000483" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_8410050" + } ] } ], "domainRangeAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000050", diff --git a/empty.obo b/empty.obo index e1387e2..e2a145a 100644 --- a/empty.obo +++ b/empty.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: releases/2026-02-23 +data-version: releases/2026-04-04 idspace: dce http://purl.org/dc/elements/1.1/ idspace: dcterms http://purl.org/dc/terms/ idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# @@ -10,7 +10,7 @@ ontology: empty property_value: dcterms:description "An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences." xsd:string property_value: dcterms:license https://creativecommons.org/licenses/by/4.0/ property_value: dcterms:title "Experimental Measurements Purposes and Treatments ontologY" xsd:string -property_value: owl:versionInfo "2026-02-23" xsd:string +property_value: owl:versionInfo "2026-04-04" xsd:string property_value: owl:versionInfo "Release 2025-07-10" xsd:string [Term] @@ -115,7 +115,7 @@ is_a: CHEBI:36338 ! lepton [Term] id: CHEBI:131604 name: Mycoplasma genitalium metabolite -def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] +def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] is_a: CHEBI:76969 ! bacterial metabolite [Term] @@ -131,11 +131,12 @@ def: "A carbohydrate acid derivative anion obtained by deprotonation of the carb is_a: CHEBI:61469 ! polyanionic polymer is_a: CHEBI:63551 ! carbohydrate acid derivative anion relationship: is_conjugate_base_of CHEBI:16336 ! hyaluronic acid +relationship: RO:0018033 CHEBI:16336 ! is deprotonated form of hyaluronic acid [Term] id: CHEBI:136889 name: 5beta steroid -def: "Any steroid that has beta-configuration at position 5." [] +def: "Any steroid that has β-configuration at position 5." [] is_a: CHEBI:35341 ! steroid [Term] @@ -147,7 +148,7 @@ is_a: CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:138366 name: bile acids -def: "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration." [] +def: "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5α-configuration." [] is_a: CHEBI:25384 ! monocarboxylic acid is_a: CHEBI:35350 ! hydroxy steroid is_a: CHEBI:36078 ! cholanoid @@ -163,29 +164,30 @@ id: CHEBI:13941 name: carbamate is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:28616 ! carbamic acid +relationship: RO:0018033 CHEBI:28616 ! is deprotonated form of carbamic acid [Term] id: CHEBI:140601 name: fatty acid 4:0 def: "Any saturated fatty acid containing 4 carbons." [] is_a: CHEBI:26666 ! short-chain fatty acid -relationship: is_conjugate_acid_of CHEBI:78115 ! fatty acid anion 4:0 +relationship: RO:0018034 CHEBI:78115 ! is protonated form of fatty acid anion 4:0 [Term] id: CHEBI:142163 name: 24G7 epitope -def: "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." [] +def: "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22." [] is_a: CHEBI:24433 ! group relationship: RO:0000087 CHEBI:53000 ! has role epitope [Term] id: CHEBI:14321 name: glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_acid_of CHEBI:29987 ! glutamate(2-) -relationship: is_conjugate_base_of CHEBI:18237 ! glutamic acid relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018033 CHEBI:18237 ! is deprotonated form of glutamic acid +relationship: RO:0018034 CHEBI:29987 ! is protonated form of glutamate(2-) [Term] id: CHEBI:15339 @@ -216,6 +218,16 @@ relationship: RO:0000087 CHEBI:48356 ! has role protic solvent relationship: RO:0000087 CHEBI:64049 ! has role food acidity regulator relationship: RO:0000087 CHEBI:65256 ! has role antimicrobial food preservative relationship: RO:0000087 CHEBI:83056 ! has role Daphnia magna metabolite +relationship: RO:0018034 CHEBI:30089 ! is protonated form of acetate + +[Term] +id: CHEBI:15378 +name: hydron +def: "The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes)." [] +is_a: CHEBI:25414 ! monoatomic monocation +is_a: CHEBI:33251 ! monoatomic hydrogen +is_a: CHEBI:33252 ! atomic nucleus +is_a: CHEBI:60242 ! monovalent inorganic cation [Term] id: CHEBI:15379 @@ -231,20 +243,21 @@ relationship: RO:0000087 CHEBI:63248 ! has role oxidising agent relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite relationship: RO:0000087 CHEBI:77974 ! has role food packaging gas +relationship: RO:0018033 CHEBI:29793 ! is deprotonated form of hydridodioxygen(1+) [Term] id: CHEBI:15693 name: aldose -def: "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals." [] +def: "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n ≥ 2) and their intramolecular hemiacetals." [] is_a: CHEBI:35381 ! monosaccharide [Term] id: CHEBI:15705 name: L-alpha-amino acid -def: "Any alpha-amino acid having L-configuration at the alpha-carbon." [] +def: "Any α-amino acid having L-configuration at the α-carbon." [] is_a: CHEBI:33704 ! alpha-amino acid -relationship: is_conjugate_acid_of CHEBI:59814 ! L-alpha-amino acid anion -relationship: is_tautomer_of CHEBI:59869 ! L-alpha-amino acid zwitterion +relationship: RO:0018034 CHEBI:59814 ! is protonated form of L-alpha-amino acid anion +relationship: RO:0018036 CHEBI:59869 ! is tautomer of L-alpha-amino acid zwitterion [Term] id: CHEBI:15841 @@ -255,13 +268,13 @@ is_a: CHEBI:16670 ! peptide [Term] id: CHEBI:15966 name: D-glutamic acid -def: "An optically active form of glutamic acid having D-configuration." [] +def: "An optically active form of glutamic acid having D-configuration." [] is_a: CHEBI:16733 ! D-alpha-amino acid is_a: CHEBI:18237 ! glutamic acid -relationship: is_conjugate_acid_of CHEBI:29986 ! D-glutamate(1-) -relationship: is_enantiomer_of CHEBI:16015 ! L-glutamic acid relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:29986 ! is protonated form of D-glutamate(1-) +relationship: RO:0018039 CHEBI:16015 ! is enantiomer of L-glutamic acid [Term] id: CHEBI:15986 @@ -274,17 +287,17 @@ relationship: BFO:0000051 CHEBI:50319 ! has part nucleotide residue [Term] id: CHEBI:16015 name: L-glutamic acid -def: "An optically active form of glutamic acid having L-configuration." [] +def: "An optically active form of glutamic acid having L-configuration." [] is_a: CHEBI:18237 ! glutamic acid is_a: CHEBI:24318 ! glutamine family amino acid -relationship: is_conjugate_acid_of CHEBI:29985 ! L-glutamate(1-) -relationship: is_enantiomer_of CHEBI:15966 ! D-glutamic acid relationship: RO:0000087 CHEBI:173085 ! has role ferroptosis inducer relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:27027 ! has role micronutrient relationship: RO:0000087 CHEBI:50733 ! has role nutraceutical relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:29985 ! is protonated form of L-glutamate(1-) +relationship: RO:0018039 CHEBI:15966 ! is enantiomer of D-glutamic acid [Term] id: CHEBI:16134 @@ -301,6 +314,8 @@ relationship: RO:0000087 CHEBI:59740 ! has role nucleophilic reagent relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77941 ! has role EC 3.5.1.4 (amidase) inhibitor relationship: RO:0000087 CHEBI:78433 ! has role refrigerant +relationship: RO:0018033 CHEBI:28938 ! is deprotonated form of ammonium +relationship: RO:0018034 CHEBI:29337 ! is protonated form of azanide [Term] id: CHEBI:16189 @@ -313,15 +328,17 @@ relationship: is_conjugate_base_of CHEBI:45696 ! hydrogensulfate relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:45696 ! is deprotonated form of hydrogensulfate [Term] id: CHEBI:16336 name: hyaluronic acid -def: "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells." [] +def: "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells." [] is_a: CHEBI:37395 ! mucopolysaccharide is_a: CHEBI:72813 ! exopolysaccharide relationship: is_conjugate_acid_of CHEBI:132153 ! hyaluronate relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:132153 ! is protonated form of hyaluronate [Term] id: CHEBI:16541 @@ -333,7 +350,7 @@ relationship: BFO:0000051 CHEBI:33700 ! has part proteinogenic amino-acid residu [Term] id: CHEBI:16646 name: carbohydrate -def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] +def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] @@ -345,25 +362,27 @@ is_a: CHEBI:37622 ! carboxamide is_a: CHEBI:50047 ! organic amino compound relationship: BFO:0000051 CHEBI:33708 ! has part amino-acid residue relationship: is_tautomer_of CHEBI:60466 ! peptide zwitterion +relationship: RO:0018036 CHEBI:60466 ! is tautomer of peptide zwitterion [Term] id: CHEBI:166902 name: noradrenaline(1+) +def: "An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative -relationship: is_conjugate_acid_of CHEBI:33569 ! noradrenaline +relationship: RO:0018034 CHEBI:33569 ! is protonated form of noradrenaline [Term] id: CHEBI:16733 name: D-alpha-amino acid is_a: CHEBI:83925 ! non-proteinogenic alpha-amino acid -relationship: is_conjugate_acid_of CHEBI:60895 ! D-alpha-amino acid anion -relationship: is_tautomer_of CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: RO:0018034 CHEBI:60895 ! is protonated form of D-alpha-amino acid anion +relationship: RO:0018036 CHEBI:59871 ! is tautomer of D-alpha-amino acid zwitterion [Term] id: CHEBI:167559 name: glycan -def: "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001." [] +def: "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] @@ -378,20 +397,21 @@ relationship: is_conjugate_base_of CHEBI:57887 ! tryptaminium relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76924 ! has role plant metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:57887 ! is deprotonated form of tryptaminium [Term] id: CHEBI:16865 name: gamma-aminobutyric acid -def: "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4." [] +def: "A γ-amino acid that is butanoic acid with the amino substituent located at C-4." [] is_a: CHEBI:25384 ! monocarboxylic acid is_a: CHEBI:33707 ! gamma-amino acid -relationship: has_functional_parent CHEBI:30772 ! butyric acid -relationship: is_conjugate_acid_of CHEBI:30566 ! gamma-aminobutyrate -relationship: is_tautomer_of CHEBI:59888 ! gamma-aminobutyric acid zwitterion relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:62488 ! has role signalling molecule relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:30566 ! is protonated form of gamma-aminobutyrate +relationship: RO:0018036 CHEBI:59888 ! is tautomer of gamma-aminobutyric acid zwitterion +relationship: RO:0018038 CHEBI:30772 ! has functional parent butyric acid [Term] id: CHEBI:16990 @@ -400,15 +420,15 @@ def: "A member of the class of biladienes that is a linear tetrapyrrole with th is_a: CHEBI:35692 ! dicarboxylic acid is_a: CHEBI:36735 ! biladienes relationship: BFO:0000051 CHEBI:142163 ! has part 24G7 epitope -relationship: is_conjugate_acid_of CHEBI:57977 ! bilirubin(2-) relationship: RO:0000087 CHEBI:22586 ! has role antioxidant relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:57977 ! is protonated form of bilirubin(2-) [Term] id: CHEBI:17087 name: ketone -def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] +def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] is_a: CHEBI:36586 ! carbonyl compound [Term] @@ -436,25 +456,25 @@ id: CHEBI:17544 name: hydrogencarbonate def: "The carbon oxoanion resulting from the removal of a proton from carbonic acid." [] is_a: CHEBI:35604 ! carbon oxoanion -relationship: is_conjugate_acid_of CHEBI:41609 ! carbonate -relationship: is_conjugate_base_of CHEBI:28976 ! carbonic acid relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:28976 ! is deprotonated form of carbonic acid +relationship: RO:0018034 CHEBI:41609 ! is protonated form of carbonate [Term] id: CHEBI:17608 name: D-aldohexose -def: "Any D-aldose having a chain of six carbon atoms in the molecule." [] +def: "Any D-aldose having a chain of six carbon atoms in the molecule." [] is_a: CHEBI:33917 ! aldohexose is_a: CHEBI:4194 ! D-hexose [Term] id: CHEBI:17634 name: D-glucose -def: "A glucose with D-configuration." [] +def: "A glucose with D-configuration." [] is_a: CHEBI:17234 ! glucose is_a: CHEBI:17608 ! D-aldohexose @@ -475,9 +495,9 @@ id: CHEBI:17968 name: butyrate def: "A short-chain fatty acid anion that is the conjugate base of butyric acid, obtained by deprotonation of the carboxy group." [] is_a: CHEBI:78115 ! fatty acid anion 4:0 -relationship: is_conjugate_base_of CHEBI:30772 ! butyric acid relationship: RO:0000087 CHEBI:61115 ! has role EC 3.5.1.98 (histone deacetylase) inhibitor relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:30772 ! is deprotonated form of butyric acid [Term] id: CHEBI:18059 @@ -508,12 +528,12 @@ is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:18237 name: glutamic acid -def: "An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2." [] +def: "An α-amino acid that is glutaric acid bearing a single amino substituent at position 2." [] is_a: CHEBI:26167 ! polar amino acid is_a: CHEBI:33704 ! alpha-amino acid relationship: BFO:0000051 CHEBI:50329 ! has part 2-carboxyethyl group -relationship: is_conjugate_acid_of CHEBI:14321 ! glutamate(1-) relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018034 CHEBI:14321 ! is protonated form of glutamate(1-) [Term] id: CHEBI:18282 @@ -524,15 +544,15 @@ is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:18357 name: (R)-noradrenaline -def: "The R-enantiomer of noradrenaline." [] +def: "The R-enantiomer of noradrenaline." [] is_a: CHEBI:33569 ! noradrenaline -relationship: is_conjugate_base_of CHEBI:72587 ! (R)-noradrenaline(1+) -relationship: is_enantiomer_of CHEBI:33571 ! (S)-noradrenaline relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:35524 ! has role sympathomimetic agent relationship: RO:0000087 CHEBI:35569 ! has role alpha-adrenergic agonist relationship: RO:0000087 CHEBI:50514 ! has role vasoconstrictor agent relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0018033 CHEBI:72587 ! is deprotonated form of (R)-noradrenaline(1+) +relationship: RO:0018039 CHEBI:33571 ! is enantiomer of (S)-noradrenaline [Term] id: CHEBI:20664 @@ -542,7 +562,7 @@ is_a: CHEBI:35519 ! cholane [Term] id: CHEBI:22221 name: acyl group -def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] +def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l ≠ 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] is_a: CHEBI:33247 ! organic group [Term] @@ -610,6 +630,7 @@ name: carbamoyl group def: "The univalent carboacyl group formed by loss of -OH from the carboxy group of carbamic acid." [] is_a: CHEBI:27207 ! univalent carboacyl group relationship: is_substituent_group_from CHEBI:28616 ! carbamic acid +relationship: RO:0018037 CHEBI:28616 ! is substitutent group from carbamic acid [Term] id: CHEBI:23019 @@ -628,6 +649,14 @@ name: molecular entity def: "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." [] is_a: CHEBI:24431 ! chemical entity +[Term] +id: CHEBI:234420 +name: (S)-noradrenaline(1+) +def: "An organic cation that is the conjugate acid of (S)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] +is_a: CHEBI:166902 ! noradrenaline(1+) +relationship: RO:0018034 CHEBI:33571 ! is protonated form of (S)-noradrenaline +relationship: RO:0018039 CHEBI:72587 ! is enantiomer of (R)-noradrenaline(1+) + [Term] id: CHEBI:23449 name: cyclic peptide @@ -655,14 +684,14 @@ is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:24318 name: glutamine family amino acid -def: "An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." [] +def: "An L-α-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class." [] is_a: CHEBI:15705 ! L-alpha-amino acid is_a: CHEBI:83813 ! proteinogenic amino acid [Term] id: CHEBI:24319 name: EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor -def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." [] +def: "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2)." [] is_a: CHEBI:76823 ! EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor [Term] @@ -714,7 +743,8 @@ is_a: CHEBI:48705 ! agonist id: CHEBI:24636 name: proton def: "Nuclear particle of charge number +1, spin 1/2 and rest mass of 1.007276470(12) u." [] -is_a: CHEBI:36342 ! subatomic particle +is_a: CHEBI:15378 ! hydron +is_a: CHEBI:33253 ! nucleon is_a: COB:0000013 ! molecule [Term] @@ -729,10 +759,10 @@ relationship: BFO:0000051 CHEBI:43176 ! has part hydroxy group [Term] id: CHEBI:24663 name: hydroxy-5beta-cholanic acid -def: "Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position." [] +def: "Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position." [] is_a: CHEBI:33822 ! organic hydroxy compound is_a: CHEBI:36248 ! 5beta-cholanic acids -relationship: has_functional_parent CHEBI:36238 ! 5beta-cholanic acid +relationship: RO:0018038 CHEBI:36238 ! has functional parent 5beta-cholanic acid [Term] id: CHEBI:24828 @@ -771,7 +801,6 @@ name: salt def: "A salt is an assembly of cations and anions." [] is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: BFO:0000051 CHEBI:22563 ! has part anion -relationship: BFO:0000051 CHEBI:36916 ! has part cation [Term] id: CHEBI:24867 @@ -833,6 +862,7 @@ name: monocarboxylic acid def: "An oxoacid containing a single carboxy group." [] is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:35757 ! monocarboxylic acid anion +relationship: RO:0018034 CHEBI:35757 ! is protonated form of monocarboxylic acid anion [Term] id: CHEBI:25414 @@ -883,6 +913,7 @@ name: organic sulfate def: "Compounds of the general formula SO3HOR where R is an organyl group" [] is_a: CHEBI:26820 ! sulfates relationship: is_conjugate_acid_of CHEBI:58958 ! organosulfate oxoanion +relationship: RO:0018034 CHEBI:58958 ! is protonated form of organosulfate oxoanion [Term] id: CHEBI:25741 @@ -916,7 +947,7 @@ id: CHEBI:26167 name: polar amino acid def: "Any amino acid whose side chain is capable of forming one or more hydrogen bonds." [] is_a: CHEBI:33709 ! amino acid -relationship: is_tautomer_of CHEBI:62031 ! polar amino acid zwitterion +relationship: RO:0018036 CHEBI:62031 ! is tautomer of polar amino acid zwitterion [Term] id: CHEBI:26607 @@ -927,9 +958,9 @@ is_a: CHEBI:35366 ! fatty acid [Term] id: CHEBI:26666 name: short-chain fatty acid -def: "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." [] +def: "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." [] is_a: CHEBI:35366 ! fatty acid -relationship: is_conjugate_acid_of CHEBI:58951 ! short-chain fatty acid anion +relationship: RO:0018034 CHEBI:58951 ! is protonated form of short-chain fatty acid anion [Term] id: CHEBI:26708 @@ -992,6 +1023,7 @@ def: "A sulfur oxoacid that consists of two oxo and two hydroxy groups joined co is_a: CHEBI:33402 ! sulfur oxoacid relationship: is_conjugate_acid_of CHEBI:45696 ! hydrogensulfate relationship: RO:0000087 CHEBI:35223 ! has role catalyst +relationship: RO:0018034 CHEBI:45696 ! is protonated form of hydrogensulfate [Term] id: CHEBI:26932 @@ -1040,7 +1072,7 @@ relationship: RO:0000087 CHEBI:33937 ! has role macronutrient [Term] id: CHEBI:28087 name: glycogen -def: "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." [] +def: "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues." [] is_a: CHEBI:24384 ! glycogens relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite @@ -1054,6 +1086,7 @@ is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:64708 ! one-carbon compound relationship: is_conjugate_acid_of CHEBI:13941 ! carbamate relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +relationship: RO:0018034 CHEBI:13941 ! is protonated form of carbamate [Term] id: CHEBI:28790 @@ -1069,6 +1102,8 @@ relationship: is_conjugate_base_of CHEBI:350546 ! serotonin(1+) relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:350546 ! is deprotonated form of serotonin(1+) +relationship: RO:0018038 CHEBI:16765 ! has functional parent tryptamine [Term] id: CHEBI:28868 @@ -1076,7 +1111,7 @@ name: fatty acid anion def: "The conjugate base of a fatty acid, arising from deprotonation of the carboxylic acid group of the corresponding fatty acid." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:35757 ! monocarboxylic acid anion -relationship: is_conjugate_base_of CHEBI:35366 ! fatty acid +relationship: RO:0018033 CHEBI:35366 ! is deprotonated form of fatty acid [Term] id: CHEBI:28938 @@ -1090,6 +1125,7 @@ relationship: RO:0000087 CHEBI:23357 ! has role cofactor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:16134 ! is protonated form of ammonia [Term] id: CHEBI:28965 @@ -1103,8 +1139,8 @@ id: CHEBI:28976 name: carbonic acid is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:36961 ! chalcocarbonic acid -relationship: is_conjugate_acid_of CHEBI:17544 ! hydrogencarbonate relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0018034 CHEBI:17544 ! is protonated form of hydrogencarbonate [Term] id: CHEBI:29067 @@ -1113,6 +1149,7 @@ def: "The conjugate base formed when the carboxy group of a carboxylic acid is d is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion relationship: is_conjugate_base_of CHEBI:33575 ! carboxylic acid +relationship: RO:0018033 CHEBI:33575 ! is deprotonated form of carboxylic acid [Term] id: CHEBI:29101 @@ -1132,6 +1169,8 @@ is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:29340 ! hydridonitrate(2-) relationship: is_conjugate_base_of CHEBI:16134 ! ammonia +relationship: RO:0018033 CHEBI:16134 ! is deprotonated form of ammonia +relationship: RO:0018034 CHEBI:29340 ! is protonated form of hydridonitrate(2-) [Term] id: CHEBI:29340 @@ -1140,57 +1179,59 @@ def: "A divalent inorganic anion resulting from the removal of two protons from is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79388 ! divalent inorganic anion relationship: is_conjugate_base_of CHEBI:29337 ! azanide +relationship: RO:0018033 CHEBI:29337 ! is deprotonated form of azanide [Term] id: CHEBI:29793 name: hydridodioxygen(1+) is_a: CHEBI:33693 ! oxygen hydride relationship: is_conjugate_acid_of CHEBI:15379 ! dioxygen +relationship: RO:0018034 CHEBI:15379 ! is protonated form of dioxygen [Term] id: CHEBI:29985 name: L-glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:14321 ! glutamate(1-) -relationship: is_conjugate_acid_of CHEBI:29988 ! L-glutamate(2-) -relationship: is_conjugate_base_of CHEBI:16015 ! L-glutamic acid -relationship: is_enantiomer_of CHEBI:29986 ! D-glutamate(1-) relationship: RO:0000087 CHEBI:24319 ! has role EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16015 ! is deprotonated form of L-glutamic acid +relationship: RO:0018034 CHEBI:29988 ! is protonated form of L-glutamate(2-) +relationship: RO:0018039 CHEBI:29986 ! is enantiomer of D-glutamate(1-) [Term] id: CHEBI:29986 name: D-glutamate(1-) -def: "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +def: "An α-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" [] is_a: CHEBI:14321 ! glutamate(1-) -relationship: is_conjugate_acid_of CHEBI:29989 ! D-glutamate(2-) -relationship: is_conjugate_base_of CHEBI:15966 ! D-glutamic acid -relationship: is_enantiomer_of CHEBI:29985 ! L-glutamate(1-) +relationship: RO:0018033 CHEBI:15966 ! is deprotonated form of D-glutamic acid +relationship: RO:0018034 CHEBI:29989 ! is protonated form of D-glutamate(2-) +relationship: RO:0018039 CHEBI:29985 ! is enantiomer of L-glutamate(1-) [Term] id: CHEBI:29987 name: glutamate(2-) -def: "A dicarboxylic acid dianion that is the conjugate base of glutamate(1-)." [] +def: "A dicarboxylic acid dianion that is the conjugate base of glutamate(1−)." [] is_a: CHEBI:28965 ! dicarboxylic acid dianion -relationship: is_conjugate_base_of CHEBI:14321 ! glutamate(1-) relationship: RO:0000087 CHEBI:78675 ! has role fundamental metabolite +relationship: RO:0018033 CHEBI:14321 ! is deprotonated form of glutamate(1-) [Term] id: CHEBI:29988 name: L-glutamate(2-) -def: "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." [] +def: "An L-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." [] is_a: CHEBI:29987 ! glutamate(2-) is_a: CHEBI:59814 ! L-alpha-amino acid anion -relationship: is_conjugate_base_of CHEBI:29985 ! L-glutamate(1-) -relationship: is_enantiomer_of CHEBI:29989 ! D-glutamate(2-) +relationship: RO:0018033 CHEBI:29985 ! is deprotonated form of L-glutamate(1-) +relationship: RO:0018039 CHEBI:29989 ! is enantiomer of D-glutamate(2-) [Term] id: CHEBI:29989 name: D-glutamate(2-) is_a: CHEBI:29987 ! glutamate(2-) -relationship: is_conjugate_base_of CHEBI:29986 ! D-glutamate(1-) -relationship: is_enantiomer_of CHEBI:29988 ! L-glutamate(2-) +relationship: RO:0018033 CHEBI:29986 ! is deprotonated form of D-glutamate(1-) +relationship: RO:0018039 CHEBI:29988 ! is enantiomer of L-glutamate(2-) [Term] id: CHEBI:30089 @@ -1200,21 +1241,22 @@ is_a: CHEBI:35757 ! monocarboxylic acid anion relationship: is_conjugate_base_of CHEBI:15366 ! acetic acid relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:15366 ! is deprotonated form of acetic acid [Term] id: CHEBI:30212 name: photon -def: "Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force." [] +def: "Particle of zero charge, zero rest mass, spin quantum number 1, energy hν and momentum hν/c (h is the Planck constant, ν the frequency of radiation and c the speed of light), carrier of electromagnetic force." [] is_a: CHEBI:36341 ! boson [Term] id: CHEBI:30566 name: gamma-aminobutyrate -def: "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid." [] +def: "An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid." [] is_a: CHEBI:71666 ! gamma-amino acid anion -relationship: has_functional_parent CHEBI:17968 ! butyrate -relationship: is_conjugate_base_of CHEBI:16865 ! gamma-aminobutyric acid relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16865 ! is deprotonated form of gamma-aminobutyric acid +relationship: RO:0018038 CHEBI:17968 ! has functional parent butyrate [Term] id: CHEBI:30772 @@ -1222,14 +1264,14 @@ name: butyric acid def: "A straight-chain saturated fatty acid that is butane in which one of the terminal methyl groups has been oxidised to a carboxy group." [] is_a: CHEBI:140601 ! fatty acid 4:0 is_a: CHEBI:39418 ! straight-chain saturated fatty acid -relationship: is_conjugate_acid_of CHEBI:17968 ! butyrate relationship: RO:0000087 CHEBI:131604 ! has role Mycoplasma genitalium metabolite relationship: RO:0000087 CHEBI:84087 ! has role human urinary metabolite +relationship: RO:0018034 CHEBI:17968 ! is protonated form of butyrate [Term] id: CHEBI:3098 name: bile acid -def: "Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration." [] +def: "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration." [] is_a: CHEBI:138366 ! bile acids is_a: CHEBI:24663 ! hydroxy-5beta-cholanic acid @@ -1242,7 +1284,7 @@ is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:32988 name: amide -def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] +def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] is_a: CHEBI:51143 ! nitrogen molecular entity [Term] @@ -1268,6 +1310,7 @@ id: CHEBI:33241 name: oxoacid derivative is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_functional_parent CHEBI:24833 ! oxoacid +relationship: RO:0018038 CHEBI:24833 ! has functional parent oxoacid [Term] id: CHEBI:33242 @@ -1295,6 +1338,8 @@ def: "Any substituent group or skeleton containing carbon." [] is_a: CHEBI:24433 ! group relationship: is_conjugate_acid_of CHEBI:64775 ! organic anionic group relationship: is_conjugate_base_of CHEBI:64769 ! organic cationic group +relationship: RO:0018033 CHEBI:64769 ! is deprotonated form of organic cationic group +relationship: RO:0018034 CHEBI:64775 ! is protonated form of organic anionic group [Term] id: CHEBI:33249 @@ -1307,9 +1352,14 @@ id: CHEBI:33250 name: atom def: "A chemical entity constituting the smallest component of an element having the chemical properties of the element." [] is_a: CHEBI:24431 ! chemical entity -relationship: BFO:0000051 CHEBI:10545 ! has part electron relationship: BFO:0000051 CHEBI:33252 ! has part atomic nucleus +[Term] +id: CHEBI:33251 +name: monoatomic hydrogen +is_a: CHEBI:33238 ! monoatomic entity +is_a: CHEBI:33260 ! elemental hydrogen + [Term] id: CHEBI:33252 name: atomic nucleus @@ -1327,7 +1377,7 @@ is_a: CHEBI:36347 ! nuclear particle [Term] id: CHEBI:33256 name: primary amide -def: "A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] +def: "A derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] is_a: CHEBI:32988 ! amide [Term] @@ -1336,6 +1386,13 @@ name: elemental molecular entity def: "A molecular entity all atoms of which have the same atomic number." [] is_a: CHEBI:23367 ! molecular entity +[Term] +id: CHEBI:33260 +name: elemental hydrogen +is_a: CHEBI:24835 ! inorganic molecular entity +is_a: CHEBI:33259 ! elemental molecular entity +is_a: CHEBI:33608 ! hydrogen molecular entity + [Term] id: CHEBI:33262 name: elemental oxygen @@ -1475,6 +1532,7 @@ name: alpha-amino-acid anion def: "An amino-acid anion obtained by deprotonation of any alpha-amino acid." [] is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018033 CHEBI:33704 ! is deprotonated form of alpha-amino acid [Term] id: CHEBI:33559 @@ -1490,7 +1548,7 @@ is_a: CHEBI:33318 ! main group element atom [Term] id: CHEBI:33566 name: catechols -def: "Any compound containing an o-diphenol component." [] +def: "Any compound containing an o-diphenol component." [] is_a: CHEBI:33570 ! benzenediols [Term] @@ -1505,8 +1563,8 @@ id: CHEBI:33569 name: noradrenaline def: "A catecholamine in which C-1 of the aminoethyl side-chain is hydroxy-substituted." [] is_a: CHEBI:33567 ! catecholamine -relationship: is_conjugate_base_of CHEBI:166902 ! noradrenaline(1+) relationship: RO:0000087 CHEBI:76967 ! has role human xenobiotic metabolite +relationship: RO:0018033 CHEBI:166902 ! is deprotonated form of noradrenaline(1+) [Term] id: CHEBI:33570 @@ -1516,9 +1574,10 @@ is_a: CHEBI:33853 ! phenols [Term] id: CHEBI:33571 name: (S)-noradrenaline -def: "The S-enantiomer of noradrenaline." [] +def: "The S-enantiomer of noradrenaline." [] is_a: CHEBI:33569 ! noradrenaline -relationship: is_enantiomer_of CHEBI:18357 ! (R)-noradrenaline +relationship: RO:0018033 CHEBI:234420 ! is deprotonated form of (S)-noradrenaline(1+) +relationship: RO:0018039 CHEBI:18357 ! is enantiomer of (R)-noradrenaline [Term] id: CHEBI:33575 @@ -1529,6 +1588,7 @@ is_a: CHEBI:36586 ! carbonyl compound is_a: CHEBI:64709 ! organic acid relationship: BFO:0000051 CHEBI:46883 ! has part carboxy group relationship: is_conjugate_acid_of CHEBI:29067 ! carboxylic acid anion +relationship: RO:0018034 CHEBI:29067 ! is protonated form of carboxylic acid anion [Term] id: CHEBI:33579 @@ -1553,7 +1613,6 @@ is_a: CHEBI:25367 ! molecule id: CHEBI:33608 name: hydrogen molecular entity is_a: CHEBI:33674 ! s-block molecular entity -relationship: BFO:0000051 CHEBI:49637 ! has part hydrogen atom [Term] id: CHEBI:33635 @@ -1597,7 +1656,6 @@ id: CHEBI:33674 name: s-block molecular entity def: "An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element." [] is_a: CHEBI:33579 ! main group molecular entity -relationship: BFO:0000051 CHEBI:33559 ! has part s-block element atom [Term] id: CHEBI:33675 @@ -1633,7 +1691,7 @@ is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:33696 name: nucleic acid -def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] +def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] is_a: CHEBI:15986 ! polynucleotide relationship: BFO:0000051 CHEBI:33791 ! has part canonical nucleoside residue relationship: BFO:0000051 CHEBI:50297 ! has part canonical nucleotide residue @@ -1664,6 +1722,7 @@ name: amino-acid cation is_a: CHEBI:25697 ! organic cation is_a: CHEBI:33702 ! polyatomic cation relationship: is_conjugate_acid_of CHEBI:33709 ! amino acid +relationship: RO:0018034 CHEBI:33709 ! is protonated form of amino acid [Term] id: CHEBI:33704 @@ -1673,13 +1732,16 @@ is_a: CHEBI:33709 ! amino acid relationship: is_conjugate_acid_of CHEBI:33558 ! alpha-amino-acid anion relationship: is_conjugate_base_of CHEBI:33719 ! alpha-amino-acid cation relationship: is_tautomer_of CHEBI:78608 ! alpha-amino-acid zwitterion +relationship: RO:0018033 CHEBI:33719 ! is deprotonated form of alpha-amino-acid cation +relationship: RO:0018034 CHEBI:33558 ! is protonated form of alpha-amino-acid anion +relationship: RO:0018036 CHEBI:78608 ! is tautomer of alpha-amino-acid zwitterion [Term] id: CHEBI:33707 name: gamma-amino acid -def: "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group." [] +def: "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group." [] is_a: CHEBI:83820 ! non-proteinogenic amino acid -relationship: is_conjugate_acid_of CHEBI:71666 ! gamma-amino acid anion +relationship: RO:0018034 CHEBI:71666 ! is protonated form of gamma-amino acid anion [Term] id: CHEBI:33708 @@ -1689,6 +1751,9 @@ is_a: CHEBI:33247 ! organic group relationship: is_conjugate_acid_of CHEBI:64898 ! anionic amino-acid residue relationship: is_conjugate_base_of CHEBI:58942 ! cationic amino-acid residue relationship: is_substituent_group_from CHEBI:33709 ! amino acid +relationship: RO:0018033 CHEBI:58942 ! is deprotonated form of cationic amino-acid residue +relationship: RO:0018034 CHEBI:64898 ! is protonated form of anionic amino-acid residue +relationship: RO:0018037 CHEBI:33709 ! is substitutent group from amino acid [Term] id: CHEBI:33709 @@ -1698,6 +1763,8 @@ is_a: CHEBI:33575 ! carboxylic acid is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_acid_of CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33703 ! amino-acid cation +relationship: RO:0018033 CHEBI:33703 ! is deprotonated form of amino-acid cation +relationship: RO:0018034 CHEBI:37022 ! is protonated form of amino-acid anion [Term] id: CHEBI:33710 @@ -1705,12 +1772,14 @@ name: alpha-amino-acid residue def: "An amino-acid residue derived from an alpha-amino acid." [] is_a: CHEBI:33708 ! amino-acid residue relationship: is_substituent_group_from CHEBI:33704 ! alpha-amino acid +relationship: RO:0018037 CHEBI:33704 ! is substitutent group from alpha-amino acid [Term] id: CHEBI:33719 name: alpha-amino-acid cation is_a: CHEBI:33703 ! amino-acid cation relationship: is_conjugate_acid_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018034 CHEBI:33704 ! is protonated form of alpha-amino acid [Term] id: CHEBI:33720 @@ -1718,12 +1787,14 @@ name: carbohydrate acid is_a: CHEBI:16646 ! carbohydrate is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:33721 ! carbohydrate acid anion +relationship: RO:0018034 CHEBI:33721 ! is protonated form of carbohydrate acid anion [Term] id: CHEBI:33721 name: carbohydrate acid anion is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:33720 ! carbohydrate acid +relationship: RO:0018033 CHEBI:33720 ! is deprotonated form of carbohydrate acid [Term] id: CHEBI:33791 @@ -1804,6 +1875,7 @@ def: "An ammonium ion that is the conjugate acid of serotonin; major species at is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:28790 ! serotonin relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:28790 ! is protonated form of serotonin [Term] id: CHEBI:35106 @@ -1814,7 +1886,7 @@ is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35107 name: azane -def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] +def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] is_a: CHEBI:35106 ! nitrogen hydride [Term] @@ -1849,6 +1921,7 @@ def: "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens is_a: CHEBI:33702 ! polyatomic cation is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_parent_hydride CHEBI:28938 ! ammonium +relationship: RO:0018040 CHEBI:28938 ! has parent hydride ammonium [Term] id: CHEBI:35287 @@ -1859,7 +1932,7 @@ is_a: CHEBI:35267 ! quaternary ammonium ion [Term] id: CHEBI:35341 name: steroid -def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene." [] +def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:51958 ! organic polycyclic compound @@ -1882,12 +1955,12 @@ name: fatty acid def: "Any aliphatic monocarboxylic acid derived from or contained in esterified form in an animal or vegetable fat, oil or wax. Natural fatty acids commonly have a chain of 4 to 28 carbons (usually unbranched and even-numbered), which may be saturated or unsaturated. By extension, the term is sometimes used to embrace all acyclic aliphatic carboxylic acids." [] is_a: CHEBI:18059 ! lipid is_a: CHEBI:25384 ! monocarboxylic acid -relationship: is_conjugate_acid_of CHEBI:28868 ! fatty acid anion +relationship: RO:0018034 CHEBI:28868 ! is protonated form of fatty acid anion [Term] id: CHEBI:35381 name: monosaccharide -def: "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." [] +def: "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H‒[CHOH]n‒C(=O)[CHOH]m‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." [] is_a: CHEBI:16646 ! carbohydrate [Term] @@ -1941,14 +2014,14 @@ is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35569 name: alpha-adrenergic agonist -def: "An agent that selectively binds to and activates alpha-adrenergic receptors." [] +def: "An agent that selectively binds to and activates α-adrenergic receptors." [] is_a: CHEBI:37886 ! adrenergic agonist is_a: CHEBI:48539 ! alpha-adrenergic drug [Term] id: CHEBI:35604 name: carbon oxoanion -def: "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n." [] +def: "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOyn for some integers x, y and n." [] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion is_a: CHEBI:36963 ! organooxygen compound @@ -1971,18 +2044,18 @@ name: dicarboxylic acid def: "Any carboxylic acid containing two carboxy groups." [] is_a: CHEBI:131927 ! dicarboxylic acids and O-substituted derivatives is_a: CHEBI:33575 ! carboxylic acid -relationship: is_conjugate_acid_of CHEBI:35693 ! dicarboxylic acid anion +relationship: RO:0018034 CHEBI:35693 ! is protonated form of dicarboxylic acid anion [Term] id: CHEBI:35693 name: dicarboxylic acid anion is_a: CHEBI:29067 ! carboxylic acid anion -relationship: is_conjugate_base_of CHEBI:35692 ! dicarboxylic acid +relationship: RO:0018033 CHEBI:35692 ! is deprotonated form of dicarboxylic acid [Term] id: CHEBI:35701 name: ester -def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] +def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] is_a: CHEBI:36963 ! organooxygen compound [Term] @@ -2004,6 +2077,7 @@ name: monocarboxylic acid anion def: "A carboxylic acid anion formed when the carboxy group of a monocarboxylic acid is deprotonated." [] is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:25384 ! monocarboxylic acid +relationship: RO:0018033 CHEBI:25384 ! is deprotonated form of monocarboxylic acid [Term] id: CHEBI:35881 @@ -2022,7 +2096,7 @@ is_a: CHEBI:52210 ! pharmacological role id: CHEBI:36078 name: cholanoid is_a: CHEBI:35341 ! steroid -relationship: has_parent_hydride CHEBI:35519 ! cholane +relationship: RO:0018040 CHEBI:35519 ! has parent hydride cholane [Term] id: CHEBI:36080 @@ -2056,10 +2130,10 @@ is_a: CHEBI:36248 ! 5beta-cholanic acids [Term] id: CHEBI:36248 name: 5beta-cholanic acids -def: "Members of the class of cholanic acids based on a 5beta-cholane skeleton." [] +def: "Members of the class of cholanic acids based on a 5β-cholane skeleton." [] is_a: CHEBI:136889 ! 5beta steroid is_a: CHEBI:36278 ! cholanic acids -relationship: has_parent_hydride CHEBI:20664 ! 5beta-cholane +relationship: RO:0018040 CHEBI:20664 ! has parent hydride 5beta-cholane [Term] id: CHEBI:36277 @@ -2209,6 +2283,7 @@ name: amino-acid anion is_a: CHEBI:29067 ! carboxylic acid anion is_a: CHEBI:35352 ! organonitrogen compound relationship: is_conjugate_base_of CHEBI:33709 ! amino acid +relationship: RO:0018033 CHEBI:33709 ! is deprotonated form of amino acid [Term] id: CHEBI:37163 @@ -2274,6 +2349,7 @@ id: CHEBI:37826 name: sulfuric acid derivative is_a: CHEBI:33424 ! sulfur oxoacid derivative relationship: has_functional_parent CHEBI:26836 ! sulfuric acid +relationship: RO:0018038 CHEBI:26836 ! has functional parent sulfuric acid [Term] id: CHEBI:37838 @@ -2281,6 +2357,7 @@ name: carboacyl group def: "A carboacyl group is a group formed by loss of at least one OH from the carboxy group of a carboxylic acid." [] is_a: CHEBI:22221 ! acyl group relationship: is_substituent_group_from CHEBI:33575 ! carboxylic acid +relationship: RO:0018037 CHEBI:33575 ! is substitutent group from carboxylic acid [Term] id: CHEBI:37886 @@ -2387,18 +2464,18 @@ name: straight-chain saturated fatty acid def: "Any saturated fatty acid lacking a side-chain." [] is_a: CHEBI:26607 ! saturated fatty acid is_a: CHEBI:59202 ! straight-chain fatty acid -relationship: is_conjugate_acid_of CHEBI:58954 ! straight-chain saturated fatty acid anion +relationship: RO:0018034 CHEBI:58954 ! is protonated form of straight-chain saturated fatty acid anion [Term] id: CHEBI:41609 name: carbonate is_a: CHEBI:35604 ! carbon oxoanion -relationship: is_conjugate_base_of CHEBI:17544 ! hydrogencarbonate +relationship: RO:0018033 CHEBI:17544 ! is deprotonated form of hydrogencarbonate [Term] id: CHEBI:4167 name: D-glucopyranose -def: "A glucopyranose having D-configuration." [] +def: "A glucopyranose having D-configuration." [] is_a: CHEBI:17634 ! D-glucose is_a: CHEBI:37661 ! glucopyranose relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite @@ -2409,7 +2486,7 @@ relationship: RO:0000087 CHEBI:77746 ! has role human metabolite [Term] id: CHEBI:4194 name: D-hexose -def: "A hexose that has D-configuration at position 5." [] +def: "A hexose that has D-configuration at position 5." [] is_a: CHEBI:18133 ! hexose [Term] @@ -2423,6 +2500,8 @@ name: hydrogensulfate is_a: CHEBI:33482 ! sulfur oxoanion relationship: is_conjugate_acid_of CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:26836 ! sulfuric acid +relationship: RO:0018033 CHEBI:26836 ! is deprotonated form of sulfuric acid +relationship: RO:0018034 CHEBI:16189 ! is protonated form of sulfate [Term] id: CHEBI:46629 @@ -2447,6 +2526,7 @@ name: acetate ester def: "Any carboxylic ester where the carboxylic acid component is acetic acid." [] is_a: CHEBI:33308 ! carboxylic ester relationship: has_functional_parent CHEBI:15366 ! acetic acid +relationship: RO:0018038 CHEBI:15366 ! has functional parent acetic acid [Term] id: CHEBI:47891 @@ -2454,7 +2534,7 @@ name: steroid acid def: "Any steroid substituted by at least one carboxy group." [] is_a: CHEBI:35341 ! steroid is_a: CHEBI:64709 ! organic acid -relationship: is_conjugate_acid_of CHEBI:50160 ! steroid acid anion +relationship: RO:0018034 CHEBI:50160 ! is protonated form of steroid acid anion [Term] id: CHEBI:48154 @@ -2478,7 +2558,7 @@ is_a: CHEBI:48354 ! polar solvent [Term] id: CHEBI:48539 name: alpha-adrenergic drug -def: "Any drug that acts on an alpha-adrenergic receptor." [] +def: "Any drug that acts on an α-adrenergic receptor." [] is_a: CHEBI:37962 ! adrenergic agent [Term] @@ -2502,13 +2582,14 @@ def: "A compound formally derived from ammonia by replacing one, two or three hy is_a: CHEBI:35352 ! organonitrogen compound relationship: has_parent_hydride CHEBI:16134 ! ammonia relationship: RO:0000087 CHEBI:39142 ! has role Bronsted base +relationship: RO:0018040 CHEBI:16134 ! has parent hydride ammonia [Term] id: CHEBI:50160 name: steroid acid anion def: "Any anion formed by loss of a proton from a steroid acid." [] is_a: CHEBI:29067 ! carboxylic acid anion -relationship: is_conjugate_base_of CHEBI:47891 ! steroid acid +relationship: RO:0018033 CHEBI:47891 ! is deprotonated form of steroid acid [Term] id: CHEBI:50297 @@ -2589,6 +2670,7 @@ name: primary amino compound def: "A compound formally derived from ammonia by replacing one hydrogen atom by an organyl group." [] is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_base_of CHEBI:65296 ! primary ammonium ion +relationship: RO:0018033 CHEBI:65296 ! is deprotonated form of primary ammonium ion [Term] id: CHEBI:51086 @@ -2651,6 +2733,7 @@ is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52211 name: physiological role +def: "A biological role relating to the normal mechanisms and their interactions within a living system." [] is_a: CHEBI:24432 ! biological role [Term] @@ -2704,6 +2787,7 @@ relationship: is_conjugate_acid_of CHEBI:16765 ! tryptamine relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite relationship: RO:0000087 CHEBI:76924 ! has role plant metabolite relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:16765 ! is protonated form of tryptamine [Term] id: CHEBI:57977 @@ -2711,8 +2795,8 @@ name: bilirubin(2-) def: "A dicarboxylic acid dianion obtained by deprotonation of the two carboxy groups of bilirubin; major species at pH 7.3." [] is_a: CHEBI:28965 ! dicarboxylic acid dianion is_a: CHEBI:59252 ! linear tetrapyrrole anion -relationship: is_conjugate_base_of CHEBI:16990 ! bilirubin IXalpha relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018033 CHEBI:16990 ! is deprotonated form of bilirubin IXalpha [Term] id: CHEBI:58942 @@ -2720,18 +2804,19 @@ name: cationic amino-acid residue def: "An amino-acid residue protonated on nitrogen." [] is_a: CHEBI:64769 ! organic cationic group relationship: is_conjugate_acid_of CHEBI:33708 ! amino-acid residue +relationship: RO:0018034 CHEBI:33708 ! is protonated form of amino-acid residue [Term] id: CHEBI:58951 name: short-chain fatty acid anion -def: "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." [] +def: "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." [] is_a: CHEBI:28868 ! fatty acid anion -relationship: is_conjugate_base_of CHEBI:26666 ! short-chain fatty acid +relationship: RO:0018033 CHEBI:26666 ! is deprotonated form of short-chain fatty acid [Term] id: CHEBI:58953 name: saturated fatty acid anion -def: "Any fatty acid anion in which there is no C-C unsaturation." [] +def: "Any fatty acid anion in which there is no C‒C unsaturation." [] is_a: CHEBI:28868 ! fatty acid anion [Term] @@ -2739,7 +2824,7 @@ id: CHEBI:58954 name: straight-chain saturated fatty acid anion def: "Any saturated fatty acid anion lacking a carbon side-chain." [] is_a: CHEBI:58953 ! saturated fatty acid anion -relationship: is_conjugate_base_of CHEBI:39418 ! straight-chain saturated fatty acid +relationship: RO:0018033 CHEBI:39418 ! is deprotonated form of straight-chain saturated fatty acid [Term] id: CHEBI:58958 @@ -2749,20 +2834,22 @@ is_a: CHEBI:25696 ! organic anion is_a: CHEBI:33482 ! sulfur oxoanion relationship: has_functional_parent CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:25704 ! organic sulfate +relationship: RO:0018033 CHEBI:25704 ! is deprotonated form of organic sulfate +relationship: RO:0018038 CHEBI:16189 ! has functional parent sulfate [Term] id: CHEBI:59202 name: straight-chain fatty acid def: "Any fatty acid whose skeletal carbon atoms form an unbranched open chain." [] is_a: CHEBI:35366 ! fatty acid -relationship: is_conjugate_acid_of CHEBI:59203 ! straight-chain fatty acid anion +relationship: RO:0018034 CHEBI:59203 ! is protonated form of straight-chain fatty acid anion [Term] id: CHEBI:59203 name: straight-chain fatty acid anion def: "A fatty acid anion formed by deprotonation of the carboxylic acid functional group of a straight-chain fatty acid." [] is_a: CHEBI:28868 ! fatty acid anion -relationship: is_conjugate_base_of CHEBI:59202 ! straight-chain fatty acid +relationship: RO:0018033 CHEBI:59202 ! is deprotonated form of straight-chain fatty acid [Term] id: CHEBI:59252 @@ -2780,30 +2867,30 @@ is_a: CHEBI:39144 ! Lewis base [Term] id: CHEBI:59814 name: L-alpha-amino acid anion -def: "Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group." [] +def: "Conjugate base of an L-α-amino acid arising from deprotonation of the C-1 carboxy group." [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_base_of CHEBI:15705 ! L-alpha-amino acid +relationship: RO:0018033 CHEBI:15705 ! is deprotonated form of L-alpha-amino acid [Term] id: CHEBI:59869 name: L-alpha-amino acid zwitterion -def: "Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of an L-α-amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:78608 ! alpha-amino-acid zwitterion -relationship: is_tautomer_of CHEBI:15705 ! L-alpha-amino acid +relationship: RO:0018036 CHEBI:15705 ! is tautomer of L-alpha-amino acid [Term] id: CHEBI:59871 name: D-alpha-amino acid zwitterion -def: "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of a D-α-amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:16733 ! D-alpha-amino acid +relationship: RO:0018036 CHEBI:16733 ! is tautomer of D-alpha-amino acid [Term] id: CHEBI:59888 name: gamma-aminobutyric acid zwitterion -def: "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group." [] +def: "Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:16865 ! gamma-aminobutyric acid +relationship: RO:0018036 CHEBI:16865 ! is tautomer of gamma-aminobutyric acid [Term] id: CHEBI:59999 @@ -2843,13 +2930,14 @@ name: peptide zwitterion def: "Zwitterionic form of any peptide where, in general, the amino terminus is positively charged and the carboxy terminus is negatively charged." [] is_a: CHEBI:27369 ! zwitterion relationship: is_tautomer_of CHEBI:16670 ! peptide +relationship: RO:0018036 CHEBI:16670 ! is tautomer of peptide [Term] id: CHEBI:60895 name: D-alpha-amino acid anion -def: "Any alpha-amino acid anion in which the parent amino acid has D-configuration." [] +def: "Any α-amino acid anion in which the parent amino acid has D-configuration." [] is_a: CHEBI:33558 ! alpha-amino-acid anion -relationship: is_conjugate_base_of CHEBI:16733 ! D-alpha-amino acid +relationship: RO:0018033 CHEBI:16733 ! is deprotonated form of D-alpha-amino acid [Term] id: CHEBI:61115 @@ -2864,6 +2952,7 @@ def: "Any compound that has a nucleobase as a part." [] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_functional_parent CHEBI:18282 ! nucleobase +relationship: RO:0018038 CHEBI:18282 ! has functional parent nucleobase [Term] id: CHEBI:61469 @@ -2877,7 +2966,7 @@ id: CHEBI:62031 name: polar amino acid zwitterion def: "Zwitterionic form of a polar amino acid having an anionic carboxy group and a protonated amino group." [] is_a: CHEBI:35238 ! amino-acid zwitterion -relationship: is_tautomer_of CHEBI:26167 ! polar amino acid +relationship: RO:0018036 CHEBI:26167 ! is tautomer of polar amino acid [Term] id: CHEBI:62488 @@ -2897,6 +2986,7 @@ name: carbohydrate derivative def: "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds." [] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives relationship: has_functional_parent CHEBI:16646 ! carbohydrate +relationship: RO:0018038 CHEBI:16646 ! has functional parent carbohydrate [Term] id: CHEBI:63436 @@ -2905,6 +2995,8 @@ def: "A carbohydrate derivative that is formally obtained from a carbohydrate ac is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:33720 ! carbohydrate acid relationship: is_conjugate_acid_of CHEBI:63551 ! carbohydrate acid derivative anion +relationship: RO:0018034 CHEBI:63551 ! is protonated form of carbohydrate acid derivative anion +relationship: RO:0018038 CHEBI:33720 ! has functional parent carbohydrate acid [Term] id: CHEBI:63534 @@ -2919,6 +3011,8 @@ def: "A carboxylic acid anion resulting from the deprotonation of the carboxy gr is_a: CHEBI:29067 ! carboxylic acid anion relationship: has_functional_parent CHEBI:33721 ! carbohydrate acid anion relationship: is_conjugate_base_of CHEBI:63436 ! carbohydrate acid derivative +relationship: RO:0018033 CHEBI:63436 ! is deprotonated form of carbohydrate acid derivative +relationship: RO:0018038 CHEBI:33721 ! has functional parent carbohydrate acid anion [Term] id: CHEBI:64047 @@ -2976,6 +3070,7 @@ name: organic cationic group def: "A cationic group that contains carbon." [] is_a: CHEBI:64766 ! cationic group relationship: is_conjugate_acid_of CHEBI:33247 ! organic group +relationship: RO:0018034 CHEBI:33247 ! is protonated form of organic group [Term] id: CHEBI:64775 @@ -2983,6 +3078,7 @@ name: organic anionic group def: "An anionic group that contains carbon." [] is_a: CHEBI:64767 ! anionic group relationship: is_conjugate_base_of CHEBI:33247 ! organic group +relationship: RO:0018033 CHEBI:33247 ! is deprotonated form of organic group [Term] id: CHEBI:64898 @@ -2990,6 +3086,7 @@ name: anionic amino-acid residue def: "An amino-acid residue carrying an overall negative charge." [] is_a: CHEBI:64775 ! organic anionic group relationship: is_conjugate_base_of CHEBI:33708 ! amino-acid residue +relationship: RO:0018033 CHEBI:33708 ! is deprotonated form of amino-acid residue [Term] id: CHEBI:64909 @@ -3005,6 +3102,7 @@ is_a: CHEBI:167559 ! glycan is_a: CHEBI:33694 ! biomacromolecule is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:18154 ! polysaccharide +relationship: RO:0018038 CHEBI:18154 ! has functional parent polysaccharide [Term] id: CHEBI:65255 @@ -3026,6 +3124,7 @@ def: "An ammonium ion derivative resulting from the protonation of the nitrogen is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:50994 ! primary amino compound +relationship: RO:0018034 CHEBI:50994 ! is protonated form of primary amino compound [Term] id: CHEBI:67079 @@ -3036,17 +3135,18 @@ is_a: CHEBI:33232 ! application [Term] id: CHEBI:71666 name: gamma-amino acid anion -def: "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group." [] +def: "An amino-acid anion in which the amino group is situated γ- to the carboxylate group." [] is_a: CHEBI:37022 ! amino-acid anion -relationship: is_conjugate_base_of CHEBI:33707 ! gamma-amino acid +relationship: RO:0018033 CHEBI:33707 ! is deprotonated form of gamma-amino acid [Term] id: CHEBI:72587 name: (R)-noradrenaline(1+) -def: "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3." [] +def: "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3." [] is_a: CHEBI:166902 ! noradrenaline(1+) -relationship: is_conjugate_acid_of CHEBI:18357 ! (R)-noradrenaline relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +relationship: RO:0018034 CHEBI:18357 ! is protonated form of (R)-noradrenaline +relationship: RO:0018039 CHEBI:234420 ! is enantiomer of (S)-noradrenaline(1+) [Term] id: CHEBI:72695 @@ -3076,7 +3176,7 @@ is_a: CHEBI:52845 ! cyclic organic group [Term] id: CHEBI:75600 name: EC 6.3.* (C-N bond-forming ligase) inhibitor -def: "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*)." [] +def: "A ligase inhibitor that interferes with the action of a CN bond-forming ligase (EC 6.3.*.*)." [] is_a: CHEBI:75603 ! EC 6.* (ligase) inhibitor [Term] @@ -3106,13 +3206,13 @@ is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:75771 name: mouse metabolite -def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] +def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:75772 name: Saccharomyces cerevisiae metabolite -def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae)." [] +def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae )." [] is_a: CHEBI:76946 ! fungal metabolite [Term] @@ -3148,7 +3248,7 @@ is_a: CHEBI:76764 ! EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibi [Term] id: CHEBI:76823 name: EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor -def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." [] +def: "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." [] is_a: CHEBI:75600 ! EC 6.3.* (C-N bond-forming ligase) inhibitor [Term] @@ -3179,13 +3279,13 @@ is_a: CHEBI:75787 ! prokaryotic metabolite [Term] id: CHEBI:76971 name: Escherichia coli metabolite -def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] +def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:77746 name: human metabolite -def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] +def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] is_a: CHEBI:75768 ! mammalian metabolite [Term] @@ -3206,7 +3306,7 @@ name: fatty acid anion 4:0 def: "Any saturated fatty acid anion containing 4 carbons. Formed by deprotonation of the carboxylic acid moiety. Major species at pH 7.3." [] is_a: CHEBI:58951 ! short-chain fatty acid anion is_a: CHEBI:58953 ! saturated fatty acid anion -relationship: is_conjugate_base_of CHEBI:140601 ! fatty acid 4:0 +relationship: RO:0018033 CHEBI:140601 ! is deprotonated form of fatty acid 4:0 [Term] id: CHEBI:78295 @@ -3226,11 +3326,12 @@ name: alpha-amino-acid zwitterion def: "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." [] is_a: CHEBI:35238 ! amino-acid zwitterion relationship: is_tautomer_of CHEBI:33704 ! alpha-amino acid +relationship: RO:0018036 CHEBI:33704 ! is tautomer of alpha-amino acid [Term] id: CHEBI:78616 name: carbohydrates and carbohydrate derivatives -def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] +def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] is_a: CHEBI:36963 ! organooxygen compound [Term] @@ -3260,19 +3361,19 @@ is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:83056 name: Daphnia magna metabolite -def: "A Daphnia metabolite produced by the species Daphnia magna." [] +def: "A Daphnia metabolite produced by the species Daphnia magna." [] is_a: CHEBI:83057 ! Daphnia metabolite [Term] id: CHEBI:83057 name: Daphnia metabolite -def: "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia" [] +def: "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia" [] is_a: CHEBI:83039 ! crustacean metabolite [Term] id: CHEBI:83813 name: proteinogenic amino acid -def: "Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." [] +def: "Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration." [] is_a: CHEBI:33709 ! amino acid [Term] @@ -3284,7 +3385,7 @@ is_a: CHEBI:33709 ! amino acid [Term] id: CHEBI:83925 name: non-proteinogenic alpha-amino acid -def: "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." [] +def: "Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids." [] is_a: CHEBI:33704 ! alpha-amino acid is_a: CHEBI:83820 ! non-proteinogenic amino acid @@ -3309,9 +3410,10 @@ is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle +disjoint_from: GO:0044423 ! virion component relationship: BFO:0000051 GO:0005634 {gci_filler="PATO:0001407", gci_relation="RO:0000053"} ! has part nucleus relationship: BFO:0000051 GO:0005634 {gci_filler="PATO:0001908", gci_relation="RO:0000053"} ! has part nucleus -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: CL:0000005 @@ -3973,6 +4075,7 @@ name: chondrocyte synonym: "cartilage cell" EXACT [] is_a: CL:0000153 ! glycosaminoglycan secreting cell is_a: CL:0000667 ! collagen secreting cell +is_a: CL:0007001 ! skeletogenic cell relationship: RO:0001025 UBERON:0002418 ! located in cartilage tissue relationship: RO:0002202 CL:0000058 ! develops from chondroblast @@ -8864,298 +8967,298 @@ is_a: EMPTY:0000002 ! behavioral measurement [Term] id: EMPTY:0000006 name: elevated plus maze: open arm (north) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000007 name: elevated plus maze: open arm (south) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000008 name: elevated plus maze: open arm total entries -def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000009 name: elevated plus maze: open arm (north) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000010 name: elevated plus maze: open arm (south) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000011 name: elevated plus maze: open arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000012 name: elevated plus maze: open arm (north) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000013 name: elevated plus maze: open arm (south) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000014 name: elevated plus maze: open arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000015 name: elevated plus maze: open arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000016 name: elevated plus maze: open arm (north) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000017 name: elevated plus maze: open arm (south) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000018 name: elevated plus maze: open arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000019 name: elevated plus maze: open arm (north) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000020 name: elevated plus maze: open arm (south) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000021 name: elevated plus maze: open arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000022 name: elevated plus maze: open arm (north) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000023 name: elevated plus maze: open arm (south) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000024 name: elevated plus maze: open arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000025 name: elevated plus maze: closed arm (west) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000026 name: elevated plus maze: closed arm (east) - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000027 name: elevated plus maze: closed arm total entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000028 name: elevated plus maze: closed arm (west) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000029 name: elevated plus maze: closed arm (east) - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000030 name: elevated plus maze: closed arm total head entries -def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000031 name: elevated plus maze: closed arm (west) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000032 name: elevated plus maze: closed arm (east) - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000033 name: elevated plus maze: closed arm total time -def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000034 name: elevated plus maze: closed arm total - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000035 name: elevated plus maze: closed arm (west) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000036 name: elevated plus maze: closed arm (east) - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000037 name: elevated plus maze: closed arm total latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000038 name: elevated plus maze: closed arm (west) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000039 name: elevated plus maze: closed arm (east) - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000040 name: elevated plus maze: closed arm total time moving towards -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000041 name: elevated plus maze: closed arm (west) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000042 name: elevated plus maze: closed arm (east) - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000043 name: elevated plus maze: closed arm total time freezing -def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000044 name: elevated plus maze: center - entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000045 name: elevated plus maze: center - head entries -def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count" [] +def: "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000046 name: elevated plus maze: center - time -def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000047 name: elevated plus maze: center - percent time during test duration -def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %" [] +def: "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %" [] is_a: EMPTY:0000003 ! elevated plus maze measurement [Term] id: EMPTY:0000048 name: elevated plus maze: center - latency to first entry -def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000049 name: elevated plus maze: center - time moving towards -def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration [Term] id: EMPTY:0000050 name: elevated plus maze: center - time freezing -def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration @@ -9174,7 +9277,7 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000053 name: fear-potentiated startle: baseline acoustic startle response amplitude -def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score." [] +def: "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -9206,7 +9309,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000058 name: fear-potentiated startle: apparatus chamber identifier -def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string" [] +def: "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] @@ -9218,40 +9321,40 @@ is_a: EMPTY:0000084 ! categorical identifier [Term] id: EMPTY:0000060 name: acoustic startle response: number of samples -def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count" [] +def: "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000061 name: acoustic startle response: sampling rate -def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)" [] +def: "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)" [] is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000062 name: acoustic startle response: startle window onset amplitude -def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration." [] +def: "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000063 name: acoustic startle response: maximum amplitude -def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude [Term] id: EMPTY:0000064 name: acoustic startle response: time to maximum amplitude -def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)" [] +def: "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)" [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000091 ! timepoint [Term] id: EMPTY:0000065 name: acoustic startle response: average amplitude -def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units." [] +def: "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units." [] is_a: EMPTY:0000004 ! acoustic startle response measurement is_a: EMPTY:0000162 ! amplitude @@ -9271,7 +9374,7 @@ is_a: EMPTY:0000093 ! fear-potentiated startle parameter [Term] id: EMPTY:0000068 name: elevated plus maze: test duration -def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds" [] +def: "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds" [] is_a: EMPTY:0000003 ! elevated plus maze measurement is_a: EMPTY:0000090 ! duration is_a: EMPTY:0000092 ! elevated plus maze parameter @@ -9975,13 +10078,13 @@ is_a: EMPTY:0000164 ! contextual fear conditioning parameter [Term] id: EMPTY:0000175 name: contextual fear conditioning: time freezing -def: "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds" [] +def: "The number of seconds the individual spent freezing during a given period of time. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement [Term] id: EMPTY:0000176 name: contextual fear conditioning: block duration -def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds" [] +def: "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds" [] is_a: EMPTY:0000163 ! contextual fear conditioning measurement is_a: EMPTY:0000164 ! contextual fear conditioning parameter @@ -10321,6 +10424,175 @@ name: unknown electronic file type def: "A digital file for which the format, encoding, or origin cannot be definitively identified by the system or investigator, necessitating further manual review or specialized software for interpretation." [] is_a: NCIT:C172272 ! Electronic File Content Type +[Term] +id: EMPTY:0000231 +name: C. elegans chemotaxis assay parameter +def: "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans." [] +is_a: EMPTY:0000101 ! C. elegans behavioral assay parameter + +[Term] +id: EMPTY:0000232 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture table +def: "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000233 +name: C. elegans chemotaxis assay parameter: chemoattractant mixture volume +def: "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL)." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000234 +name: C. elegans chemotaxis assay parameter: assay duration +def: "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes." [] +is_a: EMPTY:0000231 ! C. elegans chemotaxis assay parameter + +[Term] +id: EMPTY:0000235 +name: C. elegans chemotaxis assay measurement +def: "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source." [] +is_a: EMPTY:0000100 ! C. elegans behavioral assay measurement + +[Term] +id: EMPTY:0000236 +name: C. elegans chemotaxis assay measurement: McCutcheon index +def: "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1." [] +synonym: "chemotactic ratio" EXACT [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000237 +name: C. elegans chemotaxis assay measurement: mean velocity +def: "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s)." [] +is_a: EMPTY:0000235 ! C. elegans chemotaxis assay measurement + +[Term] +id: EMPTY:0000238 +name: investigator-defined strain +def: "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository." [] +is_a: EMPTY:0000076 ! descriptor + +[Term] +id: EMPTY:0000239 +name: C. elegans strain +def: "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures." [] +is_a: EMPTY:0000238 ! investigator-defined strain + +[Term] +id: EMPTY:0000240 +name: BAB9001 +def: "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000241 +name: BAB9002 +def: "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000242 +name: TM5848 +def: "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000243 +name: PT3602 +def: "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000244 +name: BAB9003 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000245 +name: BAB9004 +def: "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000246 +name: BAB9005 +def: "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]" [] +is_a: EMPTY:0000239 ! C. elegans strain + +[Term] +id: EMPTY:0000247 +name: fluorescence imaging measurement +def: "fluorescence imaging measurement" [] +is_a: EMPTY:0000001 ! measurement + +[Term] +id: EMPTY:0000248 +name: mean fluorescence intensity +def: "Mean fluorescence intensity. Unit: arbitrary units (AU)" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000249 +name: fluorescent punctal count +def: "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count" [] +is_a: EMPTY:0000247 ! fluorescence imaging measurement + +[Term] +id: EMPTY:0000250 +name: fluorescence imaging parameter +def: "A specific parameter related to fluorescence imaging acquisition or assay." [] +is_a: EMPTY:0000080 ! parameter + +[Term] +id: EMPTY:0000251 +name: fluorescence target ontology identifier +def: "fluorescence target ontology identifier" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000252 +name: fluorescence target name +def: "fluorescence target name" [] +is_a: EMPTY:0000250 ! fluorescence imaging parameter + +[Term] +id: EMPTY:0000253 +name: SnapGene file format +def: "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites." [] +is_a: format:1929 + +[Term] +id: EMPTY:0000254 +name: Escherichia coli OP50: heat-killed +def: "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays." [] +is_a: NCBITaxon:637912 ! Escherichia coli OP50 + +[Term] +id: EMPTY:0000255 +name: C. elegans transfer method: M9 buffer wash +def: "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000256 +name: C. elegans transfer method: titanium pick +def: "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate." [] +is_a: EMPTY:0000189 ! treatment + +[Term] +id: EMPTY:0000257 +name: C. elegans chemotaxis assay: video recording +def: "A video recording capturing the behavior of C. elegans during a chemotaxis assay." [] +is_a: EMPTY:0000129 ! C. elegans behavioral assay: video recording + +[Term] +id: EMPTY:0000258 +name: fluorescence imaging data +def: "An image or video acquired using fluorescence microscopy." [] +is_a: NCIT:C16856 ! Fluorescence Microscopy + [Term] id: GO:0000011 name: vacuole inheritance @@ -16125,6 +16397,7 @@ name: biological_process synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] is_a: BFO:0000015 ! process +relationship: BFO:0000051 GO:0003674 ! has part molecular_function [Term] id: GO:0008152 @@ -17085,6 +17358,14 @@ intersection_of: GO:0008356 ! asymmetric cell division intersection_of: RO:0004009 CL:0000365 ! has primary input animal zygote relationship: RO:0004009 CL:0000365 ! has primary input animal zygote +[Term] +id: GO:0010155 +name: regulation of proton transport +is_a: GO:1904062 ! regulation of monoatomic cation transmembrane transport +intersection_of: GO:0065007 ! biological regulation +intersection_of: RO:0002211 GO:1902600 ! regulates (processual) proton transmembrane transport +relationship: RO:0002211 GO:1902600 ! regulates (processual) proton transmembrane transport + [Term] id: GO:0010160 name: formation of animal organ boundary @@ -18776,22 +19057,6 @@ intersection_of: GO:0050896 ! response to stimulus intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation relationship: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation -[Term] -id: GO:0014878 -name: response to electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0014874 ! response to stimulus involved in regulation of muscle adaptation -is_a: GO:0051602 ! response to electrical stimulus -intersection_of: GO:0051602 ! response to electrical stimulus -intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation - -[Term] -id: GO:0014879 -name: detection of electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0014878 ! response to electrical stimulus involved in regulation of muscle adaptation -is_a: GO:0050981 ! detection of electrical stimulus -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0043502 ! part of regulation of muscle adaptation - [Term] id: GO:0014887 name: cardiac muscle adaptation @@ -18899,6 +19164,18 @@ intersection_of: RO:0004009 CHEBI:24867 ! has primary input monoatomic ion relationship: BFO:0000050 GO:0034220 ! part of monoatomic ion transmembrane transport relationship: RO:0004009 CHEBI:24867 ! has primary input monoatomic ion +[Term] +id: GO:0015078 +name: proton transmembrane transporter activity +synonym: "hydrogen ion transmembrane transporter activity" EXACT [] +synonym: "proton transporter activity" EXACT [] +is_a: GO:0008324 ! monoatomic cation transmembrane transporter activity +intersection_of: GO:0005215 ! transporter activity +intersection_of: RO:0002342 GO:0016020 ! results in transport across membrane +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron +relationship: BFO:0000050 GO:1902600 ! part of proton transmembrane transport +relationship: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:0015081 name: sodium ion transmembrane transporter activity @@ -19836,7 +20113,7 @@ intersection_of: GO:0042592 ! homeostatic process intersection_of: BFO:0000066 CL:0000000 ! occurs in cell disjoint_from: GO:0048872 ! homeostasis of number of cells relationship: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0019748 @@ -22229,6 +22506,7 @@ synonym: "proteinaceous extracellular matrix" EXACT [] is_a: GO:0030312 ! external encapsulating structure disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle +disjoint_from: GO:0044423 ! virion component [Term] id: GO:0031016 @@ -23425,7 +23703,7 @@ is_a: GO:0045185 ! maintenance of protein location is_a: GO:0051651 ! maintenance of location in cell intersection_of: GO:0045185 ! maintenance of protein location intersection_of: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0032528 @@ -23858,6 +24136,7 @@ synonym: "macromolecule complex" EXACT [] synonym: "protein containing complex" EXACT [] is_a: COB:0000080 ! complex of molecules is_a: GO:0005575 ! cellular_component +disjoint_from: GO:0044423 ! virion component disjoint_from: GO:0110165 ! cellular anatomical entity relationship: BFO:0000051 PR:000000001 ! has part protein property_value: IAO:0000118 "protein complex" xsd:string @@ -25365,7 +25644,7 @@ relationship: RO:0012008 GO:0000139 ! results in fusion of Golgi membrane id: GO:0040007 name: growth is_a: GO:0008150 ! biological_process -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0040008 @@ -26540,6 +26819,7 @@ relationship: BFO:0000050 CL:0000125 ! part of glial cell id: GO:0043226 name: organelle is_a: GO:0110165 ! cellular anatomical entity +disjoint_from: GO:0044423 ! virion component [Term] id: GO:0043227 @@ -26814,7 +27094,7 @@ relationship: RO:0002211 GO:0016052 ! regulates (processual) carbohydrate catabo id: GO:0043473 name: pigmentation is_a: GO:0008150 ! biological_process -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0043500 @@ -27310,7 +27590,9 @@ is_a: GO:0008150 ! biological_process id: GO:0044423 name: virion component def: "Any constituent part of a virion, a complete fully infectious extracellular virus particle." [] +synonym: "virion part" EXACT [] is_a: GO:0005575 ! cellular_component +disjoint_from: GO:0110165 ! cellular anatomical entity [Term] id: GO:0044458 @@ -32065,11 +32347,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: RO:0002213 GO:0050931 ! positively regulates pigment cell differentiation relationship: RO:0002213 GO:0050931 ! positively regulates pigment cell differentiation -[Term] -id: GO:0050952 -name: sensory perception of electrical stimulus -is_a: GO:0007600 ! sensory perception - [Term] id: GO:0050953 name: sensory perception of light stimulus @@ -32082,13 +32359,6 @@ synonym: "mechanosensory perception" EXACT [] synonym: "perception of mechanical stimulus" EXACT [] is_a: GO:0007600 ! sensory perception -[Term] -id: GO:0050956 -name: electroception -synonym: "electroception sense" EXACT [] -synonym: "electroceptive sense" EXACT [] -is_a: GO:0050952 ! sensory perception of electrical stimulus - [Term] id: GO:0050962 name: detection of light stimulus involved in sensory perception @@ -32104,44 +32374,6 @@ intersection_of: GO:0009583 ! detection of light stimulus intersection_of: BFO:0000050 GO:0007600 ! part of sensory perception relationship: BFO:0000050 GO:0050953 ! part of sensory perception of light stimulus -[Term] -id: GO:0050963 -name: detection of electrical stimulus involved in sensory perception -synonym: "sensory detection of electrical stimulus" EXACT [] -synonym: "sensory detection of electrical stimulus during sensory perception" EXACT [] -synonym: "sensory perception, sensory detection of electrical stimulus" EXACT [] -synonym: "sensory perception, sensory transduction of electrical stimulus" EXACT [] -synonym: "sensory transduction of electrical stimulus" EXACT [] -synonym: "sensory transduction of electrical stimulus during sensory perception" EXACT [] -is_a: GO:0050906 ! detection of stimulus involved in sensory perception -is_a: GO:0050981 ! detection of electrical stimulus -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0007600 ! part of sensory perception -relationship: BFO:0000050 GO:0050952 ! part of sensory perception of electrical stimulus - -[Term] -id: GO:0050964 -name: detection of electrical stimulus involved in electroception -synonym: "electroception, detection of electrical stimulus" EXACT [] -synonym: "electroception, sensory detection of electrical stimulus" EXACT [] -synonym: "electroception, sensory transduction" EXACT [] -synonym: "electroception, sensory transduction of electrical stimulus" EXACT [] -is_a: GO:0050963 ! detection of electrical stimulus involved in sensory perception -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0050956 ! part of electroception -relationship: BFO:0000050 GO:0050956 ! part of electroception - -[Term] -id: GO:0050967 -name: detection of electrical stimulus involved in sensory perception of pain -synonym: "perception of pain, detection of electrical stimulus" EXACT [] -synonym: "perception of pain, sensory detection of electrical stimulus" EXACT [] -synonym: "perception of pain, sensory transduction of electrical stimulus" EXACT [] -is_a: GO:0050963 ! detection of electrical stimulus involved in sensory perception -is_a: GO:0062149 ! detection of stimulus involved in sensory perception of pain -intersection_of: GO:0050981 ! detection of electrical stimulus -intersection_of: BFO:0000050 GO:0019233 ! part of sensory perception of pain - [Term] id: GO:0050968 name: detection of chemical stimulus involved in sensory perception of pain @@ -32164,12 +32396,6 @@ synonym: "taction" EXACT [] synonym: "tactition" EXACT [] is_a: GO:0050954 ! sensory perception of mechanical stimulus -[Term] -id: GO:0050981 -name: detection of electrical stimulus -is_a: GO:0009582 ! detection of abiotic stimulus -is_a: GO:0051602 ! response to electrical stimulus - [Term] id: GO:0050994 name: regulation of lipid catabolic process @@ -33069,11 +33295,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: RO:0002213 GO:0006836 ! positively regulates neurotransmitter transport relationship: RO:0002213 GO:0006836 ! positively regulates neurotransmitter transport -[Term] -id: GO:0051602 -name: response to electrical stimulus -is_a: GO:0009628 ! response to abiotic stimulus - [Term] id: GO:0051606 name: detection of stimulus @@ -33234,7 +33455,7 @@ intersection_of: GO:0051234 ! establishment of localization intersection_of: BFO:0000066 CL:0000000 ! occurs in cell relationship: BFO:0000050 GO:0051641 ! part of cellular localization relationship: BFO:0000066 CL:0000000 ! occurs in cell -relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organisms +relationship: RO:0002162 NCBITaxon:131567 ! in taxon cellular organism [Term] id: GO:0051650 @@ -40754,6 +40975,7 @@ synonym: "cellular anatomical entity" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: GO:0005575 ! cellular_component is_a: UBERON:0000061 ! anatomical structure +disjoint_from: UBERON:0000001 ! gross anatomical part relationship: BFO:0000051 COB:0000013 ! has part molecule [Term] @@ -40790,6 +41012,18 @@ intersection_of: GO:0042995 ! cell projection intersection_of: BFO:0000051 GO:0098590 ! has part plasma membrane region relationship: BFO:0000051 GO:0098590 ! has part plasma membrane region +[Term] +id: GO:0120029 +name: proton export across plasma membrane +synonym: "hydrogen ion export across plasma membrane" EXACT [] +is_a: GO:0140115 ! export across plasma membrane +is_a: GO:1902600 ! proton transmembrane transport +intersection_of: GO:0006810 ! transport +intersection_of: RO:0002338 GO:0005829 ! has target start location cytosol +intersection_of: RO:0002339 GO:0005576 ! has target end location extracellular region +intersection_of: RO:0002342 GO:0005886 ! results in transport across plasma membrane +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:0120031 name: plasma membrane bounded cell projection assembly @@ -43532,6 +43766,17 @@ intersection_of: GO:0008104 ! intracellular protein localization intersection_of: RO:0002339 GO:0005730 ! has target end location nucleolus relationship: RO:0002339 GO:0005730 ! has target end location nucleolus +[Term] +id: GO:1902600 +name: proton transmembrane transport +synonym: "hydrogen ion transmembrane transport" EXACT [] +synonym: "hydrogen transmembrane transport" EXACT [] +is_a: GO:0098655 ! monoatomic cation transmembrane transport +is_a: GO:0098662 ! inorganic cation transmembrane transport +intersection_of: GO:0055085 ! transmembrane transport +intersection_of: RO:0004009 CHEBI:15378 ! has primary input hydron +relationship: RO:0004009 CHEBI:15378 ! has primary input hydron + [Term] id: GO:1902679 name: negative regulation of RNA biosynthetic process @@ -49094,7 +49339,7 @@ is_a: IAO:0000104 ! plan specification [Term] id: IAO:0000027 -name: data item +name: data entity def: "An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." [] is_a: IAO:0000030 ! information content entity @@ -49143,7 +49388,7 @@ is_a: IAO:0000033 ! directive information entity id: IAO:0000100 name: data set def: "A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets." [] -is_a: IAO:0000027 ! data item +is_a: IAO:0000027 ! data entity [Term] id: IAO:0000101 @@ -49155,7 +49400,7 @@ is_a: IAO:0000308 ! figure id: IAO:0000102 name: data about an ontology part def: "Data about an ontology part is a data item about a part of an ontology, for example a term" [] -is_a: IAO:0000027 ! data item +is_a: IAO:0000027 ! data entity [Term] id: IAO:0000104 @@ -49386,6 +49631,16 @@ id: NCBITaxon:1206795 name: Lophotrochozoa is_a: NCBITaxon:2697495 ! Spiralia +[Term] +id: NCBITaxon:1224 +name: Pseudomonadota +is_a: NCBITaxon:3379134 ! Pseudomonadati + +[Term] +id: NCBITaxon:1236 +name: Gammaproteobacteria +is_a: NCBITaxon:1224 ! Pseudomonadota + [Term] id: NCBITaxon:124129 name: Acipenserinae @@ -49415,7 +49670,8 @@ disjoint_from: NCBITaxon:33511 ! Deuterostomia [Term] id: NCBITaxon:131567 -name: cellular organisms +name: cellular organism +is_a: COB:0000022 ! organism is_a: NCBITaxon:1 ! root [Term] @@ -49528,7 +49784,7 @@ is_a: NCBITaxon:6656 ! Arthropoda [Term] id: NCBITaxon:2 name: Bacteria -is_a: NCBITaxon:131567 ! cellular organisms +is_a: NCBITaxon:131567 ! cellular organism [Term] id: NCBITaxon:2058185 @@ -49548,7 +49804,7 @@ is_a: NCBITaxon:9604 ! Hominidae [Term] id: NCBITaxon:2157 name: Archaea -is_a: NCBITaxon:131567 ! cellular organisms +is_a: NCBITaxon:131567 ! cellular organism [Term] id: NCBITaxon:2301116 @@ -49603,9 +49859,7 @@ is_a: NCBITaxon:2743709 ! Danionidae [Term] id: NCBITaxon:2759 name: Eukaryota -is_a: COB:0000022 ! organism -is_a: NCBITaxon:131567 ! cellular organisms -property_value: IAO:0000118 "eucaryotes" xsd:string +is_a: NCBITaxon:131567 ! cellular organism property_value: IAO:0000118 "eukaryotes" xsd:string [Term] @@ -49736,6 +49990,7 @@ id: NCBITaxon:33208 name: Metazoa is_a: NCBITaxon:33154 ! Opisthokonta disjoint_from: NCBITaxon:4751 ! Fungi +property_value: IAO:0000118 "animals" xsd:string property_value: IAO:0000118 "metazoans" xsd:string property_value: IAO:0000118 "multicellular animals" xsd:string @@ -49791,6 +50046,11 @@ id: NCBITaxon:3378 name: Gnetales is_a: NCBITaxon:1445966 ! Gnetidae +[Term] +id: NCBITaxon:3379134 +name: Pseudomonadati +is_a: NCBITaxon:2 ! Bacteria + [Term] id: NCBITaxon:3398 name: Magnoliopsida @@ -49968,6 +50228,11 @@ id: NCBITaxon:50557 name: Insecta is_a: NCBITaxon:6960 ! Hexapoda +[Term] +id: NCBITaxon:543 +name: Enterobacteriaceae +is_a: NCBITaxon:91347 ! Enterobacterales + [Term] id: NCBITaxon:554915 name: Amoebozoa @@ -49983,6 +50248,16 @@ id: NCBITaxon:55885 name: Peloderinae is_a: NCBITaxon:6243 ! Rhabditidae +[Term] +id: NCBITaxon:561 +name: Escherichia +is_a: NCBITaxon:543 ! Enterobacteriaceae + +[Term] +id: NCBITaxon:562 +name: Escherichia coli +is_a: NCBITaxon:561 ! Escherichia + [Term] id: NCBITaxon:5782 name: Dictyostelium @@ -50061,6 +50336,11 @@ id: NCBITaxon:6362 name: Sabellida is_a: NCBITaxon:105391 ! Canalipalpata +[Term] +id: NCBITaxon:637912 +name: Escherichia coli OP50 +is_a: NCBITaxon:562 ! Escherichia coli + [Term] id: NCBITaxon:6656 name: Arthropoda @@ -50331,6 +50611,11 @@ id: NCBITaxon:89593 name: Craniata is_a: NCBITaxon:7711 ! Chordata +[Term] +id: NCBITaxon:91347 +name: Enterobacterales +is_a: NCBITaxon:1236 ! Gammaproteobacteria + [Term] id: NCBITaxon:9254 name: Prototheria @@ -50429,11 +50714,27 @@ id: NCIT:C14376 name: Other Organism Groupings is_a: NCIT:C14250 ! Organism +[Term] +id: NCIT:C16203 +name: Clinical or Research Activity +is_a: NCIT:C43431 ! Activity + [Term] id: NCIT:C16847 name: Technique is_a: NCIT:C43431 ! Activity +[Term] +id: NCIT:C16853 +name: Microscopy +is_a: NCIT:C17369 ! Imaging Procedure +is_a: NCIT:C74957 ! Mixed Category Laboratory Procedure + +[Term] +id: NCIT:C16856 +name: Fluorescence Microscopy +is_a: NCIT:C17995 ! Light Microscopy + [Term] id: NCIT:C17187 name: Technology @@ -50444,12 +50745,22 @@ id: NCIT:C172272 name: Electronic File Content Type is_a: NCIT:C25284 ! Type +[Term] +id: NCIT:C17369 +name: Imaging Procedure +is_a: NCIT:C25218 ! Clinical Intervention or Procedure + [Term] id: NCIT:C179817 name: Velocity is_a: NCIT:C25447 ! Characteristic is_a: NCIT:C70766 ! Quantitative Concept +[Term] +id: NCIT:C17995 +name: Light Microscopy +is_a: NCIT:C16853 ! Microscopy + [Term] id: NCIT:C18141 name: Computer Sciences @@ -50522,6 +50833,11 @@ id: NCIT:C25206 name: Temperature is_a: NCIT:C25447 ! Characteristic +[Term] +id: NCIT:C25218 +name: Clinical Intervention or Procedure +is_a: NCIT:C16203 ! Clinical or Research Activity + [Term] id: NCIT:C25284 name: Type @@ -50532,6 +50848,11 @@ id: NCIT:C25285 name: Diameter is_a: NCIT:C70766 ! Quantitative Concept +[Term] +id: NCIT:C25294 +name: Laboratory Procedure +is_a: NCIT:C25218 ! Clinical Intervention or Procedure + [Term] id: NCIT:C25335 name: Volume @@ -50647,6 +50968,11 @@ id: NCIT:C73706 name: Spatial Qualifier is_a: NCIT:C41009 ! Qualifier +[Term] +id: NCIT:C74957 +name: Mixed Category Laboratory Procedure +is_a: NCIT:C25294 ! Laboratory Procedure + [Term] id: NCIT:C85776 name: Optical Density Measurement @@ -51087,9 +51413,9 @@ id: OBI:0200000 name: data transformation def: "A completely executed planned process that produces output data from input data." [] is_a: COB:0000035 ! completely executed planned process -relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data item -relationship: OBI:0000293 IAO:0000027 ! has specified input data item -relationship: OBI:0000299 IAO:0000027 ! has specified output data item +relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data entity +relationship: OBI:0000293 IAO:0000027 ! has specified input data entity +relationship: OBI:0000299 IAO:0000027 ! has specified output data entity relationship: OBI:0000417 OBI:0200166 ! achieves_planned_objective data transformation objective property_value: IAO:0000118 "data analysis" xsd:string property_value: IAO:0000118 "data processing" xsd:string @@ -51138,8 +51464,8 @@ id: OBI:0200111 name: data visualization def: "A planned process with the objective to graphically represent some data by inputing the data and outputting images, diagrams or animations." [] is_a: COB:0000035 ! completely executed planned process -relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data item -relationship: OBI:0000293 IAO:0000027 ! has specified input data item +relationship: OBI:0000293 IAO:0000027 {all_only="true"} ! has specified input data entity +relationship: OBI:0000293 IAO:0000027 ! has specified input data entity property_value: IAO:0000118 "data encoding as image" xsd:string property_value: IAO:0000118 "visualization" xsd:string @@ -53061,9 +53387,14 @@ is_a: BFO:0000040 ! material entity [Term] id: UBERON:0000000 name: processual entity -is_a: BFO:0000003 ! occurrent disjoint_from: UBERON:0001062 ! anatomical entity +[Term] +id: UBERON:0000001 +name: gross anatomical part +is_a: UBERON:0000465 ! material anatomical entity +disjoint_from: UBERON:0000468 ! multicellular organism + [Term] id: UBERON:0000005 name: chemosensory organ @@ -53320,6 +53651,7 @@ relationship: RO:0002220 UBERON:0002553 ! adjacent to anatomical cavity [Term] id: UBERON:0000061 name: anatomical structure +def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." [] synonym: "biological structure" EXACT [] is_a: UBERON:0000465 ! material anatomical entity relationship: RO:0002496 UBERON:0000106 {gci_filler="NCBITaxon:33208", gci_relation="RO:0002162"} ! existence starts during or after zygote stage @@ -53533,6 +53865,7 @@ synonym: "entire life cycle" EXACT [] synonym: "entire lifespan" EXACT [] synonym: "life" EXACT [] synonym: "lifespan" EXACT [] +is_a: BFO:0000015 ! process is_a: UBERON:0000000 ! processual entity relationship: RO:0002224 UBERON:0000106 {gci_filler="NCBITaxon:33208", gci_relation="RO:0002162"} ! starts with zygote stage relationship: RO:0002230 UBERON:0000071 ! ends with death stage @@ -53540,6 +53873,7 @@ relationship: RO:0002230 UBERON:0000071 ! ends with death stage [Term] id: UBERON:0000105 name: life cycle stage +is_a: BFO:0000015 ! process is_a: UBERON:0000000 ! processual entity relationship: BFO:0000050 UBERON:0000104 ! part of life cycle @@ -53757,7 +54091,6 @@ name: proximal-distal subdivision of colon is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001155 ! colon -relationship: BFO:0000050 UBERON:0001155 ! part of colon relationship: subdivision_of UBERON:0001155 ! colon [Term] @@ -54155,7 +54488,8 @@ relationship: RO:0020101 UBERON:0001675 ! vessel supplies blood to trigeminal ga [Term] id: UBERON:0000463 name: organism substance -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part +disjoint_from: UBERON:0000468 ! multicellular organism relationship: BFO:0000050 UBERON:0000468 ! part of multicellular organism relationship: RO:0000086 PATO:0002198 ! has quality quality of a substance @@ -54229,6 +54563,7 @@ relationship: RO:0002131 UBERON:0002416 {gci_filler="NCBITaxon:6072", gci_relati [Term] id: UBERON:0000476 name: acellular anatomical structure +is_a: UBERON:0000001 ! gross anatomical part is_a: UBERON:0000061 ! anatomical structure [Term] @@ -63602,7 +63937,6 @@ name: subdivision of digestive tract is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001555 ! digestive tract -relationship: BFO:0000050 UBERON:0001555 ! part of digestive tract relationship: subdivision_of UBERON:0001555 ! digestive tract [Term] @@ -64375,7 +64709,7 @@ relationship: RO:0002202 UBERON:0003372 ! develops from pectoral appendage bud e [Term] id: UBERON:0005423 name: developing anatomical structure -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part relationship: RO:0002215 GO:0032502 ! capable of developmental process [Term] @@ -65187,7 +65521,6 @@ is_a: UBERON:0006077 ! subdivision of vertebral column intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0006071 ! caudal region relationship: BFO:0000050 UBERON:0002090 ! part of postcranial axial skeleton -relationship: BFO:0000050 UBERON:0006071 ! part of caudal region relationship: subdivision_of UBERON:0006071 ! caudal region [Term] @@ -65198,7 +65531,6 @@ synonym: "vertebral series" EXACT [] is_a: UBERON:0000075 ! subdivision of skeletal system intersection_of: UBERON:0000075 ! subdivision of skeletal system intersection_of: subdivision_of UBERON:0001130 ! vertebral column -relationship: BFO:0000050 UBERON:0001130 ! part of vertebral column relationship: BFO:0000050 UBERON:0001137 ! part of dorsum relationship: subdivision_of UBERON:0001130 ! vertebral column @@ -67532,7 +67864,6 @@ is_a: UBERON:0006077 ! subdivision of vertebral column intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: BFO:0000050 UBERON:0002100 ! part of trunk intersection_of: subdivision_of UBERON:0002100 ! trunk -relationship: BFO:0000050 UBERON:0002100 ! part of trunk relationship: subdivision_of UBERON:0002100 ! trunk [Term] @@ -68862,16 +69193,6 @@ is_a: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: BFO:0000051 CL:0000067 ! has part ciliated epithelial cell -[Term] -id: UBERON:0010521 -name: electroreceptor organ -synonym: "electric sense organ" EXACT [] -synonym: "electroreception organ" EXACT [] -is_a: UBERON:0000020 ! sense organ -intersection_of: UBERON:0000062 ! organ -intersection_of: RO:0002215 GO:0050964 ! capable of detection of electrical stimulus involved in electroception -relationship: RO:0002215 GO:0050964 ! capable of detection of electrical stimulus involved in electroception - [Term] id: UBERON:0010522 name: replacement element @@ -70299,7 +70620,6 @@ relationship: RO:0002221 UBERON:0000468 ! surrounds multicellular organism id: UBERON:0013522 name: subdivision of tube is_a: UBERON:0000064 ! organ part -relationship: BFO:0000050 UBERON:0000025 ! part of tube relationship: BFO:0000051 UBERON:0000060 ! has part anatomical wall relationship: BFO:0000051 UBERON:0000464 ! has part anatomical space relationship: subdivision_of UBERON:0000025 ! tube @@ -72479,7 +72799,7 @@ relationship: RO:0002176 UBERON:0001159 ! connects sigmoid colon [Term] id: UBERON:0036215 name: anatomical surface region -is_a: UBERON:0000465 ! material anatomical entity +is_a: UBERON:0000001 ! gross anatomical part relationship: RO:0002007 UBERON:0000061 ! bounding layer of anatomical structure [Term] @@ -73293,6 +73613,14 @@ intersection_of: UBERON:0000030 ! lamina propria intersection_of: BFO:0000050 UBERON:0001052 ! part of rectum relationship: BFO:0000050 UBERON:0001052 ! part of rectum +[Term] +id: UBERON:8850001 +name: epithelium of anorectum +is_a: UBERON:0001278 ! epithelium of large intestine +intersection_of: UBERON:0000483 ! epithelium +intersection_of: BFO:0000050 UBERON:8410050 ! part of anorectum +relationship: BFO:0000050 UBERON:8410050 ! part of anorectum + [Term] id: UO:0000001 name: length unit @@ -74088,7 +74416,7 @@ inverse_of: RO:0002336 ! positively regulated by [Typedef] id: RO:0002215 name: capable of -def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] +def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process." [] property_value: IAO:0000118 "has function realized in" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000015 ! process @@ -75282,6 +75610,59 @@ name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] holds_over_chain: RO:0002215 RO:0002233 +[Typedef] +id: RO:0018030 +name: chemical relationship + +[Typedef] +id: RO:0018033 +name: is deprotonated form of +def: "A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." [] +is_transitive: true +is_a: RO:0018030 ! chemical relationship +inverse_of: RO:0018034 ! is protonated form of + +[Typedef] +id: RO:0018034 +name: is protonated form of +def: "A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B.\n\nThis is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations." [] +is_transitive: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018036 +name: is tautomer of +def: "Two chemicals are tautomers if they can be readily interconverted.\n\nThis commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms." [] +synonym: "is desmotrope of" EXACT [] +is_symmetric: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018037 +name: is substitutent group from +def: "Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization." [] +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018038 +name: has functional parent +def: "Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. \n\nFor example, the relationship between a salt and a freebased compound is a \"has functional parent\" relationship." [] +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018039 +name: is enantiomer of +def: "Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center.\n\nA chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers)." [] +synonym: "is optical isomer of" EXACT [] +is_symmetric: true +is_a: RO:0018030 ! chemical relationship + +[Typedef] +id: RO:0018040 +name: has parent hydride +def: "Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B." [] +is_a: RO:0018030 ! chemical relationship + [Typedef] id: RO:0019000 name: regulates characteristic @@ -75420,6 +75801,7 @@ def: "c site_of p if c is the bearer of a disposition that is realized by a proc [Typedef] id: subdivision_of name: subdivision of +is_a: BFO:0000050 ! part of [Typedef] id: transitively_anteriorly_connected_to diff --git a/empty.owl b/empty.owl index 8dd0645..00c938d 100644 --- a/empty.owl +++ b/empty.owl @@ -13,12 +13,12 @@ xmlns:dcterms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + An ontology of experimental measurements in the sciences, the purposes for which experimental measurements were made, and experimental treatments, with a focus on life sciences. Experimental Measurements Purposes and Treatments ontologY EMPTY by NDI is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/). You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. You must give appropriate credit (by using the original ontology IRI for the whole ontology or original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. - 2026-02-23 + 2026-04-04 Release 2025-07-10 @@ -38,8 +38,11 @@ + A property representing the English language definitions of what NCI means by the concept. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. + English language definitions of what NCI means by the concept. These are limited to 1024 characters. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software. The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. + The official definition. definition definition textual definition @@ -1527,6 +1530,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. + A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. has function realized in capable of @@ -3628,6 +3632,101 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + chemical relationship + + + + + + + + + + + A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations. + is deprotonated form of + + + + + + + + + + A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations. + is protonated form of + + + + + + + + + + Two chemicals are tautomers if they can be readily interconverted. + +This commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms. + is desmotrope of + is tautomer of + + + + + + + + + Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization. + is substitutent group from + + + + + + + + + Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. + +For example, the relationship between a salt and a freebased compound is a "has functional parent" relationship. + has functional parent + + + + + + + + + + Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center. + +A chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers). + is optical isomer of + is enantiomer of + + + + + + + + + Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B. + has parent hydride + + + + @@ -3760,12 +3859,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - @@ -3928,6 +4021,7 @@ For example, A and B may be gene products and binding of B by A positively regul + subdivision of @@ -4183,6 +4277,7 @@ For example, A and B may be gene products and binding of B by A positively regul Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV. + Elementary particle not affected by the strong force having a spin ½, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV. electron @@ -4192,7 +4287,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium. + Any bacterial metabolite produced during a metabolic reaction in <em>Mycoplasma genitalium</em>. Mycoplasma genitalium metabolite @@ -4213,6 +4308,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4229,7 +4330,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any steroid that has beta-configuration at position 5. + Any steroid that has β-configuration at position 5. 5beta steroid @@ -4240,6 +4341,7 @@ For example, A and B may be gene products and binding of B by A positively regul A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water. + A Brønsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water. inorganic acid @@ -4251,7 +4353,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration. + Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as <i>allo</i>-bile acids, have 5α-configuration. bile acids @@ -4262,6 +4364,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa). + Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0°C and 100 kPa). gas molecular entity @@ -4271,6 +4374,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4288,7 +4397,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -4308,7 +4417,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22. + An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22. 24G7 epitope @@ -4326,17 +4435,17 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group glutamate(1-) @@ -4427,6 +4536,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4439,6 +4554,19 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes). + hydron + + + + @@ -4487,6 +4615,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4502,7 +4636,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals. + Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]<small><sub><em>n</em></sub></small>C(=O)H, <em>n</em> ≥ 2) and their intramolecular hemiacetals. aldose @@ -4514,17 +4648,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - Any alpha-amino acid having L-configuration at the alpha-carbon. + Any α-amino acid having <small>L</small>-configuration at the α-carbon. L-alpha-amino acid @@ -4559,17 +4693,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An optically active form of glutamic acid having D-configuration. + An optically active form of glutamic acid having <small>D</small>-configuration. D-glutamic acid @@ -4635,17 +4769,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An optically active form of glutamic acid having L-configuration. + An optically active form of glutamic acid having <small>L</small>-configuration. L-glutamic acid @@ -4693,6 +4827,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -4735,6 +4881,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4758,12 +4910,19 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + A mucopolysaccharide composed of <em>N</em>-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells. A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells. hyaluronic acid @@ -4790,6 +4949,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula C<small><sub><em>m</em></sub></small>(H<small><sub>2</sub></small>O)<small><sub><em>n</em></sub></small>. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates. Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates. carbohydrate @@ -4808,6 +4968,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4828,10 +4994,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + + An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. noradrenaline(1+) @@ -4843,13 +5010,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -4862,6 +5029,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also <a href="http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001" target="_blank">http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001</a>. Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001. glycan @@ -4893,6 +5061,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4936,23 +5110,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - - + + - A gamma-amino acid that is butanoic acid with the amino substituent located at C-4. + A γ-amino acid that is butanoic acid with the amino substituent located at C-4. gamma-aminobutyric acid @@ -4989,7 +5163,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -5003,7 +5177,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H). + A compound in which a carbonyl group is bonded to two carbon atoms: R<small><sub>2</sub></small>C=O (neither R may be H). ketone @@ -5082,14 +5256,14 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + The carbon oxoanion resulting from the removal of a proton from carbonic acid. @@ -5103,7 +5277,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any D-aldose having a chain of six carbon atoms in the molecule. + Any <small>D</small>-aldose having a chain of six carbon atoms in the molecule. D-aldohexose @@ -5114,7 +5288,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A glucose with D-configuration. + A glucose with <small>D</small>-configuration. D-glucose @@ -5158,7 +5332,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -5229,11 +5403,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2. + An α-amino acid that is glutaric acid bearing a single amino substituent at position 2. glutamic acid @@ -5285,17 +5459,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - The R-enantiomer of noradrenaline. + The <i>R</i>-enantiomer of noradrenaline. (R)-noradrenaline @@ -5314,6 +5488,7 @@ For example, A and B may be gene products and binding of B by A positively regul + An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids. An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids. acyl group @@ -5382,6 +5557,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base). + A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Brønsted base) or with the vacant orbital of some other molecular entity (Lewis base). base @@ -5404,6 +5580,7 @@ For example, A and B may be gene products and binding of B by A positively regul Any compound that produces a peak used as reference frequency in the delta chemical shift scale. + Any compound that produces a peak used as reference frequency in the δ chemical shift scale. NMR chemical shift reference compound @@ -5424,6 +5601,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5465,6 +5648,28 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + An organic cation that is the conjugate acid of (<i>S</i>)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. + (S)-noradrenaline(1+) + + + + @@ -5510,7 +5715,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class. + An <small>L</small>-α-amino acid which is <small>L</small>-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class. glutamine family amino acid @@ -5520,7 +5725,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2). + An EC 6.3.* (<em>C</em>‒<em>N</em> bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2). EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor @@ -5607,7 +5812,8 @@ For example, A and B may be gene products and binding of B by A positively regul - + + Nuclear particle of charge number +1, spin 1/2 and rest mass of 1.007276470(12) u. Nuclear particle of charge number +1, spin ½ and rest mass of 1.007276470(12) u. @@ -5629,6 +5835,7 @@ For example, A and B may be gene products and binding of B by A positively regul Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-)). + Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH<small><sup>−</small></sup>). hydroxides @@ -5641,11 +5848,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position. + Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position. hydroxy-5beta-cholanic acid @@ -5717,12 +5924,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - A salt is an assembly of cations and anions. salt @@ -5819,6 +6020,7 @@ For example, A and B may be gene products and binding of B by A positively regul A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan. + A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (‒CH<small><sub>2</sub></small>‒CH<small><sub>2</sub></small>‒). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan. monoamine molecular messenger @@ -5828,6 +6030,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5920,6 +6128,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -5996,7 +6210,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6022,11 +6236,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid. + An aliphatic monocarboxylic acid with a chain length of less than C<small><sub>6</sub></small>. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid. short-chain fatty acid @@ -6163,6 +6377,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6268,7 +6488,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues. + A polydisperse, highly branched glucan composed of chains of <small>D</small>-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues. glycogen @@ -6286,6 +6506,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6324,6 +6550,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6349,7 +6587,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6389,6 +6627,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6425,7 +6669,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6439,6 +6683,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6481,6 +6731,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6503,6 +6765,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6519,6 +6787,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6554,23 +6828,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - + - An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of <small>L</small>-glutamic acid, having anionic carboxy groups and a cationic amino group L-glutamate(1-) @@ -6582,23 +6856,23 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - + - An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group + An α-amino-acid anion that is the conjugate base of <small>D</small>-glutamic acid, having anionic carboxy groups and a cationic amino group D-glutamate(1-) @@ -6616,11 +6890,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - A dicarboxylic acid dianion that is the conjugate base of glutamate(1-). + A dicarboxylic acid dianion that is the conjugate base of glutamate(1−). glutamate(2-) @@ -6633,17 +6907,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid. + An <small>L</small>-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of <small>L</small>-glutamic acid. L-glutamate(2-) @@ -6655,13 +6929,13 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + @@ -6686,6 +6960,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6702,6 +6982,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Particle of zero charge, zero rest mass, spin quantum number 1, energy <em>h</em><em>ν</em> and momentum <em>h</em><em>ν</em>/<em>c</em> (<em>h</em> is the Planck constant, <em>ν</em> the frequency of radiation and <em>c</em> the speed of light), carrier of electromagnetic force. Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force. photon @@ -6720,17 +7001,17 @@ For example, A and B may be gene products and binding of B by A positively regul - - + + - - + + - An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid. + An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid. gamma-aminobutyrate @@ -6755,7 +7036,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -6770,7 +7051,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration. + Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration. bile acid @@ -6790,6 +7071,7 @@ For example, A and B may be gene products and binding of B by A positively regul + An amide is a derivative of an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. amide @@ -6830,6 +7112,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -6876,6 +7164,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -6908,12 +7208,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - @@ -6926,6 +7220,16 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + monoatomic hydrogen + + + + @@ -6957,6 +7261,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A derivative of an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group. primary amide @@ -6973,6 +7278,17 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + elemental hydrogen + + + + @@ -7126,6 +7442,7 @@ For example, A and B may be gene products and binding of B by A positively regul An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl. + An ester of a carboxylic acid, R<small><sup>1</small></sup>C(=O)OR<small><sup>2</small></sup>, where R<small><sup>1</small></sup> = H or organyl and R<small><sup>2</small></sup> = organyl. carboxylic ester @@ -7218,6 +7535,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7225,6 +7548,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino-acid anion obtained by deprotonation of any alpha-amino acid. + An amino-acid anion obtained by deprotonation of any α-amino acid. alpha-amino-acid anion @@ -7253,7 +7577,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any compound containing an o-diphenol component. + Any compound containing an <em>o</em>-diphenol component. catechols @@ -7282,7 +7606,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -7307,11 +7631,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + + + + + + + - The S-enantiomer of noradrenaline. + The <i>S</i>-enantiomer of noradrenaline. (S)-noradrenaline @@ -7329,6 +7659,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7336,6 +7672,7 @@ For example, A and B may be gene products and binding of B by A positively regul A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid. + A carbon oxoacid acid carrying at least one ‒C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid. carboxylic acid @@ -7386,12 +7723,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - hydrogen molecular entity @@ -7421,6 +7752,7 @@ For example, A and B may be gene products and binding of B by A positively regul A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character. + A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekulé structure) is said to possess aromatic character. aromatic compound @@ -7462,12 +7794,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element. s-block molecular entity @@ -7546,6 +7872,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), <small>D</small>-ribose or 2-deoxy-<small>D</small>-ribose and phosphoric acid. A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid. nucleic acid @@ -7599,6 +7926,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7614,6 +7947,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + @@ -7633,6 +7984,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group. + An amino acid in which the amino group is located on the carbon atom at the position α to the carboxy group. alpha-amino acid @@ -7644,11 +7996,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group. + A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group. gamma-amino acid @@ -7658,6 +8010,24 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + @@ -7687,6 +8057,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -7709,6 +8091,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7716,6 +8104,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino-acid residue derived from an alpha-amino acid. + An amino-acid residue derived from an α-amino acid. alpha-amino-acid residue @@ -7725,6 +8114,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7741,6 +8136,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7756,6 +8157,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7813,6 +8220,7 @@ For example, A and B may be gene products and binding of B by A positively regul A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2). + A heterocyclic compound formally derived from an arene by replacement of one or more methine (‒C=) and/or vinylene (‒CH=CH‒) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous π-electron system characteristic of aromatic systems and a number of out-of-plane π-electrons corresponding to the Hückel rule (4<em>n</em>+2). heteroarene @@ -7893,6 +8301,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7919,6 +8333,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Saturated acyclic nitrogen hydrides having the general formula N<small><sub><em>n</em></sub></small>H<small><sub><em>n</em>+2</sub></small>. Saturated acyclic nitrogen hydrides having the general formula NnHn+2. azane @@ -7961,6 +8376,7 @@ For example, A and B may be gene products and binding of B by A positively regul A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups. + A derivative of ammonium, NH<small><sub>4</sub></small><small><sup>+</small></sup>, in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups. quaternary ammonium ion @@ -7971,6 +8387,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -7978,6 +8400,7 @@ For example, A and B may be gene products and binding of B by A positively regul A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc). + A derivative of ammonium, NH<small><sub>4</sub></small><small><sup>+</small></sup>, in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc). ammonium ion derivative @@ -7998,6 +8421,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[<em>a</em>]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene. Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene. steroid @@ -8032,7 +8456,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8046,7 +8470,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group. + Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]<small><sub><em>n</em></sub></small>C(=O)H or polyhydroxy ketones H‒[CHOH]<small><sub><em>n</em></sub></small>‒C(=O)[CHOH]<small><sub><em>m</em></sub></small>‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group. monosaccharide @@ -8137,7 +8561,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An agent that selectively binds to and activates alpha-adrenergic receptors. + An agent that selectively binds to and activates α-adrenergic receptors. alpha-adrenergic agonist @@ -8149,7 +8573,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n. + A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula C<small><sub><em>x</em></sub></small>O<small><sub><em>y</em></sub></small><small><sup><em>n</em>−</small></sup> for some integers <em>x</em>, <em>y</em> and <em>n</em>. carbon oxoanion @@ -8182,7 +8606,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8198,7 +8622,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8211,6 +8635,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A compound formally derived from an oxoacid R<small><sub><em>k</em></sub></small>E(=O)<small><sub><em>l</em></sub></small>(OH)<small><sub><em>m</em></sub></small> (<em>l</em> > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter. A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter. ester @@ -8242,6 +8667,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8281,7 +8712,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8347,11 +8778,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Members of the class of cholanic acids based on a 5beta-cholane skeleton. + Members of the class of cholanic acids based on a 5β-cholane skeleton. 5beta-cholanic acids @@ -8384,6 +8815,7 @@ For example, A and B may be gene products and binding of B by A positively regul Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin). + Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek λεπτοσ (small, thin). lepton @@ -8395,6 +8827,7 @@ For example, A and B may be gene products and binding of B by A positively regul Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy). + Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek βαρυσ (heavy). baryon @@ -8607,6 +9040,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8680,6 +9119,7 @@ For example, A and B may be gene products and binding of B by A positively regul An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid). + An acid is a molecular entity capable of donating a hydron (Brønsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid). acid @@ -8708,6 +9148,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom. + An amide of a carboxylic acid, having the structure RC(=O)NR<small><sub>2</sub></small>. The term is used as a suffix in systematic name formation to denote the ‒C(=O)NH<small><sub>2</sub></small> group including its carbon atom. carboxamide @@ -8726,6 +9167,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8741,6 +9188,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -8894,6 +9347,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity capable of donating a hydron to an acceptor (Bronsted base). + A molecular entity capable of donating a hydron to an acceptor (Brønsted base). Bronsted acid @@ -8905,6 +9359,7 @@ For example, A and B may be gene products and binding of B by A positively regul A molecular entity capable of accepting a hydron from a donor (Bronsted acid). + A molecular entity capable of accepting a hydron from a donor (Brønsted acid). Bronsted base @@ -8928,7 +9383,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8944,7 +9399,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -8982,7 +9437,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A glucopyranose having D-configuration. + A glucopyranose having <small>D</small>-configuration. D-glucopyranose @@ -8992,7 +9447,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A hexose that has D-configuration at position 5. + A hexose that has <small>D</small>-configuration at position 5. D-hexose @@ -9011,6 +9466,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -9061,6 +9528,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9080,7 +9553,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9125,7 +9598,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any drug that acts on an alpha-adrenergic receptor. + Any drug that acts on an α-adrenergic receptor. alpha-adrenergic drug @@ -9168,6 +9641,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9186,7 +9665,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9330,6 +9809,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9449,6 +9934,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A biological role relating to the normal mechanisms and their interactions within a living system. physiological role @@ -9546,6 +10032,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9571,7 +10063,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9585,6 +10077,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9603,11 +10101,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6). + Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C<small><sub>6</sub></small>). short-chain fatty acid anion @@ -9617,7 +10115,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any fatty acid anion in which there is no C-C unsaturation. + Any fatty acid anion in which there is no C‒C unsaturation. saturated fatty acid anion @@ -9629,7 +10127,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9644,6 +10142,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -9657,6 +10167,7 @@ For example, A and B may be gene products and binding of B by A positively regul An organic anion of general formula RS(=O)2O(-) where R is an organyl group. + An organic anion of general formula RS(=O)2O(−) where R is an organyl group. organosulfate oxoanion @@ -9668,7 +10179,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9684,7 +10195,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9721,11 +10232,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group. + Conjugate base of an <small>L</small>-α-amino acid arising from deprotonation of the C-1 carboxy group. L-alpha-amino acid anion @@ -9737,11 +10248,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of an <small>L</small>-α-amino acid having an anionic carboxy group and a protonated amino group. L-alpha-amino acid zwitterion @@ -9753,11 +10264,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of a <small>D</small>-α-amino acid having an anionic carboxy group and a protonated amino group. D-alpha-amino acid zwitterion @@ -9769,11 +10280,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group. + Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group. gamma-aminobutyric acid zwitterion @@ -9845,6 +10356,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9863,11 +10380,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - Any alpha-amino acid anion in which the parent amino acid has D-configuration. + Any α-amino acid anion in which the parent amino acid has <small>D</small>-configuration. D-alpha-amino acid anion @@ -9888,6 +10405,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9922,7 +10445,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -9956,6 +10479,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -9972,6 +10501,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -10004,6 +10545,18 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + @@ -10069,6 +10622,7 @@ For example, A and B may be gene products and binding of B by A positively regul An organic molecular entity containing a single carbon atom (C1). + An organic molecular entity containing a single carbon atom (C<small><sub>1</sub></small>). one-carbon compound @@ -10108,6 +10662,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10124,6 +10684,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10140,6 +10706,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10168,6 +10740,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10206,6 +10784,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10234,11 +10818,11 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An amino-acid anion in which the amino group is situated gamma- to the carboxylate group. + An amino-acid anion in which the amino group is situated γ- to the carboxylate group. gamma-amino acid anion @@ -10256,11 +10840,17 @@ For example, A and B may be gene products and binding of B by A positively regul - + - An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3. + + + + + + + An organic cation that is the conjugate acid of (<i>R</i>)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3. (R)-noradrenaline(1+) @@ -10311,7 +10901,7 @@ For example, A and B may be gene products and binding of B by A positively regul - A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*). + A ligase inhibitor that interferes with the action of a <em>C</em>‒<em>N</em> bond-forming ligase (EC 6.3.*.*). EC 6.3.* (C-N bond-forming ligase) inhibitor @@ -10361,6 +10951,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any mammalian metabolite produced during a metabolic reaction in a mouse (<em>Mus musculus</em>). Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus). mouse metabolite @@ -10371,6 +10962,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any fungal metabolite produced during a metabolic reaction in Baker's yeast (<em>Saccharomyces cerevisiae </em>). Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae). Saccharomyces cerevisiae metabolite @@ -10431,7 +11023,7 @@ For example, A and B may be gene products and binding of B by A positively regul - An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). + An EC 6.3.* (<em>C</em>‒<em>N</em> bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor @@ -10482,6 +11074,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any bacterial metabolite produced during a metabolic reaction in <em>Escherichia coli</em>. Any bacterial metabolite produced during a metabolic reaction in Escherichia coli. Escherichia coli metabolite @@ -10492,6 +11085,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any mammalian metabolite produced during a metabolic reaction in humans (<em>Homo sapiens</em>). Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens). human metabolite @@ -10525,7 +11119,7 @@ For example, A and B may be gene products and binding of B by A positively regul - + @@ -10559,6 +11153,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -10566,6 +11166,7 @@ For example, A and B may be gene products and binding of B by A positively regul An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3. + An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any α-amino acid; major species at pH 7.3. alpha-amino-acid zwitterion @@ -10575,6 +11176,7 @@ For example, A and B may be gene products and binding of B by A positively regul + Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula C<small><sub><em>m</em></sub></small>(H<small><sub>2</sub></small>O)<small><sub><em>n</em></sub></small>; carbohydrate derivatives may contain other elements by substitution or condensation. Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation. carbohydrates and carbohydrate derivatives @@ -10625,6 +11227,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A <em>Daphnia</em> metabolite produced by the species <em>Daphnia magna</em>. A Daphnia metabolite produced by the species Daphnia magna. Daphnia magna metabolite @@ -10635,6 +11238,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A crustacean metabolite produced by the genus of small planktonic arthropods, <em>Daphnia</em> A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia Daphnia metabolite @@ -10645,7 +11249,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration. + Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and <em>N</em>-formylmethionine. Apart from glycine, which is non-chiral, all have <small>L</small> configuration. proteinogenic amino acid @@ -10666,7 +11270,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids. + Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids. non-proteinogenic alpha-amino acid @@ -10730,6 +11334,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. cell @@ -12592,6 +13197,7 @@ For example, A and B may be gene products and binding of B by A positively regul + @@ -27526,7 +28132,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (north) - entries @@ -27536,7 +28142,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count elevated plus maze: open arm (south) - entries @@ -27546,7 +28152,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count + In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count elevated plus maze: open arm total entries @@ -27556,7 +28162,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count elevated plus maze: open arm (north) - head entries @@ -27566,7 +28172,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count elevated plus maze: open arm (south) - head entries @@ -27576,7 +28182,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count elevated plus maze: open arm total head entries @@ -27587,7 +28193,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - time @@ -27598,7 +28204,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time @@ -27609,7 +28215,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds elevated plus maze: open arm total time @@ -27619,7 +28225,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: % elevated plus maze: open arm total - percent time during test duration @@ -27630,7 +28236,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds elevated plus maze: open arm (north) - latency to first entry @@ -27641,7 +28247,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - latency to first entry @@ -27652,7 +28258,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds elevated plus maze: open arm total latency to first entry @@ -27663,7 +28269,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (north) - time moving towards @@ -27674,7 +28280,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds elevated plus maze: open arm (south) - time moving towards @@ -27685,7 +28291,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds elevated plus maze: open arm total time moving towards @@ -27696,7 +28302,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds elevated plus maze: open arm (north) - time freezing @@ -27707,7 +28313,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds elevated plus maze: open arm (south) - time freezing @@ -27718,7 +28324,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds elevated plus maze: open arm total time freezing @@ -27728,7 +28334,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count elevated plus maze: closed arm (west) - entries @@ -27738,7 +28344,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count elevated plus maze: closed arm (east) - entries @@ -27748,7 +28354,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count elevated plus maze: closed arm total entries @@ -27758,7 +28364,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count elevated plus maze: closed arm (west) - head entries @@ -27768,7 +28374,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count elevated plus maze: closed arm (east) - head entries @@ -27778,7 +28384,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count + In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count elevated plus maze: closed arm total head entries @@ -27789,7 +28395,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time @@ -27800,7 +28406,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time @@ -27811,7 +28417,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds elevated plus maze: closed arm total time @@ -27821,7 +28427,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: % elevated plus maze: closed arm total - percent time during test duration @@ -27832,7 +28438,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - latency to first entry @@ -27843,7 +28449,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - latency to first entry @@ -27854,7 +28460,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total latency to first entry @@ -27865,7 +28471,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time moving towards @@ -27876,7 +28482,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time moving towards @@ -27887,7 +28493,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time moving towards @@ -27898,7 +28504,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds elevated plus maze: closed arm (west) - time freezing @@ -27909,7 +28515,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds elevated plus maze: closed arm (east) - time freezing @@ -27920,7 +28526,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds elevated plus maze: closed arm total time freezing @@ -27930,7 +28536,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count elevated plus maze: center - entries @@ -27940,7 +28546,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count + In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count elevated plus maze: center - head entries @@ -27951,7 +28557,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds elevated plus maze: center - time @@ -27961,7 +28567,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: % + In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: % elevated plus maze: center - percent time during test duration @@ -27972,7 +28578,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds elevated plus maze: center - latency to first entry @@ -27983,7 +28589,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds elevated plus maze: center - time moving towards @@ -27994,7 +28600,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds + In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds elevated plus maze: center - time freezing @@ -28025,7 +28631,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score. + In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score. fear-potentiated startle: baseline acoustic startle response amplitude @@ -28076,7 +28682,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string + Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string fear-potentiated startle: apparatus chamber identifier @@ -28096,7 +28702,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count + The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count acoustic startle response: number of samples @@ -28106,7 +28712,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz) + The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz) acoustic startle response: sampling rate @@ -28117,7 +28723,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration. + The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration. acoustic startle response: startle window onset amplitude @@ -28128,7 +28734,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units. + The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units. acoustic startle response: maximum amplitude @@ -28139,7 +28745,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms) + The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms) acoustic startle response: time to maximum amplitude @@ -28150,7 +28756,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units. + The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units. acoustic startle response: average amplitude @@ -28183,7 +28789,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds + In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds elevated plus maze: test duration @@ -29313,7 +29919,7 @@ For example, A and B may be gene products and binding of B by A positively regul - The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds + The number of seconds the individual spent freezing during a given period of time. Unit: seconds contextual fear conditioning: time freezing @@ -29324,7 +29930,7 @@ For example, A and B may be gene products and binding of B by A positively regul - In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds + In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds contextual fear conditioning: block duration @@ -29882,6 +30488,287 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans. + C. elegans chemotaxis assay parameter + + + + + + + + + A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans. + C. elegans chemotaxis assay parameter: chemoattractant mixture table + + + + + + + + + The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL). + C. elegans chemotaxis assay parameter: chemoattractant mixture volume + + + + + + + + + The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes. + C. elegans chemotaxis assay parameter: assay duration + + + + + + + + + A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source. + C. elegans chemotaxis assay measurement + + + + + + + + + A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1. + chemotactic ratio + C. elegans chemotaxis assay measurement: McCutcheon index + + + + + + + + + The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s). + C. elegans chemotaxis assay measurement: mean velocity + + + + + + + + + A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository. + investigator-defined strain + + + + + + + + + A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures. + C. elegans strain + + + + + + + + + A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD] + BAB9001 + + + + + + + + + A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD] + BAB9002 + + + + + + + + + A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD] + TM5848 + + + + + + + + + A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD] + PT3602 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD] + BAB9003 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9004 + + + + + + + + + A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD] + BAB9005 + + + + + + + + + fluorescence imaging measurement + fluorescence imaging measurement + + + + + + + + + Mean fluorescence intensity. Unit: arbitrary units (AU) + mean fluorescence intensity + + + + + + + + + A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count + fluorescent punctal count + + + + + + + + + A specific parameter related to fluorescence imaging acquisition or assay. + fluorescence imaging parameter + + + + + + + + + fluorescence target ontology identifier + fluorescence target ontology identifier + + + + + + + + + fluorescence target name + fluorescence target name + + + + + + + + + A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites. + SnapGene file format + + + + + + + + + A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays. + Escherichia coli OP50: heat-killed + + + + + + + + + Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper. + C. elegans transfer method: M9 buffer wash + + + + + + + + + Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate. + C. elegans transfer method: titanium pick + + + + + + + + + A video recording capturing the behavior of C. elegans during a chemotaxis assay. + C. elegans chemotaxis assay: video recording + + + + + + + + + An image or video acquired using fluorescence microscopy. + fluorescence imaging data + + + + @@ -48376,6 +49263,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + biological process physiological process biological process @@ -51166,6 +52059,32 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + regulation of proton transport + + + + @@ -56875,22 +57794,27 @@ For example, A and B may be gene products and binding of B by A positively regul - + - + - + - - + + - - + + + + + + + @@ -56915,27 +57839,32 @@ For example, A and B may be gene products and binding of B by A positively regul - response to electrical stimulus involved in regulation of muscle adaptation + cardiac muscle adaptation - + - + - + - - + + - - + + + + + + + @@ -56960,32 +57889,27 @@ For example, A and B may be gene products and binding of B by A positively regul - detection of electrical stimulus involved in regulation of muscle adaptation + striated muscle adaptation - + - + - + - + - - - - - - - + + @@ -57010,114 +57934,19 @@ For example, A and B may be gene products and binding of B by A positively regul - cardiac muscle adaptation + smooth muscle hypertrophy - + - - - - - - - - - - - - - + + - - - - - - - - - - - - - - - - - - - - - - - - - - - - striated muscle adaptation - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - smooth muscle hypertrophy - - - - - - - - - - - - + @@ -57441,6 +58270,44 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion transmembrane transporter activity + proton transporter activity + proton transmembrane transporter activity + + + + @@ -67878,6 +68745,7 @@ For example, A and B may be gene products and binding of B by A positively regul + proteinaceous extracellular matrix extracellular matrix @@ -72537,6 +73405,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. protein complex @@ -80788,6 +81657,7 @@ For example, A and B may be gene products and binding of B by A positively regul + organelle @@ -83214,7 +84084,35 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + Any constituent part of a virion, a complete fully infectious extracellular virus particle. + virion part virion component @@ -97021,15 +97919,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - sensory perception of electrical stimulus - - - - @@ -97050,17 +97939,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - electroception sense - electroceptive sense - electroception - - - - @@ -97094,93 +97972,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - - - - - - - - - - - - - - - - - - sensory detection of electrical stimulus - sensory detection of electrical stimulus during sensory perception - sensory perception, sensory detection of electrical stimulus - sensory perception, sensory transduction of electrical stimulus - sensory transduction of electrical stimulus - sensory transduction of electrical stimulus during sensory perception - detection of electrical stimulus involved in sensory perception - - - - - - - - - - - - - - - - - - - - - - - - - - electroception, detection of electrical stimulus - electroception, sensory detection of electrical stimulus - electroception, sensory transduction - electroception, sensory transduction of electrical stimulus - detection of electrical stimulus involved in electroception - - - - - - - - - - - - - - - - - - - - - perception of pain, detection of electrical stimulus - perception of pain, sensory detection of electrical stimulus - perception of pain, sensory transduction of electrical stimulus - detection of electrical stimulus involved in sensory perception of pain - - - - @@ -97220,16 +98011,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - - detection of electrical stimulus - - - - @@ -99660,15 +100441,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - - response to electrical stimulus - - - - @@ -124993,6 +125765,7 @@ For example, A and B may be gene products and binding of B by A positively regul + A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex. cellular anatomical entity cellular anatomical entity @@ -125107,6 +125880,40 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion export across plasma membrane + proton export across plasma membrane + + + + @@ -133867,6 +134674,35 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + hydrogen ion transmembrane transport + hydrogen transmembrane transport + proton transmembrane transport + + + + @@ -152650,6 +153486,7 @@ interpreted by or directly executed by a processing unit. An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements. + data entity data item @@ -153192,6 +154029,24 @@ clustering algorithm. + + + + + Pseudomonadota + + + + + + + + + Gammaproteobacteria + + + + @@ -153242,7 +154097,9 @@ clustering algorithm. + + cellular organism cellular organisms @@ -153577,9 +154434,7 @@ clustering algorithm. - - eucaryotes eukaryotes Eukaryota @@ -153806,6 +154661,7 @@ clustering algorithm. + animals metazoans multicellular animals Metazoa @@ -153905,6 +154761,15 @@ clustering algorithm. + + + + + Pseudomonadati + + + + @@ -154222,6 +155087,15 @@ clustering algorithm. + + + + + Enterobacteriaceae + + + + @@ -154249,6 +155123,24 @@ clustering algorithm. + + + + + Escherichia + + + + + + + + + Escherichia coli + + + + @@ -154387,6 +155279,15 @@ clustering algorithm. + + + + + Escherichia coli OP50 + + + + @@ -154869,6 +155770,15 @@ clustering algorithm. + + + + + Enterobacterales + + + + @@ -155045,6 +155955,15 @@ clustering algorithm. + + + + + Clinical or Research Activity + + + + @@ -155054,6 +155973,25 @@ clustering algorithm. + + + + + + Microscopy + + + + + + + + + Fluorescence Microscopy + + + + @@ -155072,6 +156010,15 @@ clustering algorithm. + + + + + Imaging Procedure + + + + @@ -155082,6 +156029,15 @@ clustering algorithm. + + + + + Light Microscopy + + + + @@ -155210,6 +156166,15 @@ clustering algorithm. + + + + + Clinical Intervention or Procedure + + + + @@ -155228,6 +156193,15 @@ clustering algorithm. + + + + + Laboratory Procedure + + + + @@ -155435,6 +156409,15 @@ clustering algorithm. + + + + + Mixed Category Laboratory Procedure + + + + @@ -160575,13 +161558,22 @@ class labels for these objects. The resulting predictor can be used to attach cl - processual entity + + + + + + gross anatomical part + + + + @@ -161367,6 +162359,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. biological structure anatomical structure @@ -161976,6 +162969,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + @@ -161995,6 +162989,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + @@ -162682,12 +163677,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -163970,7 +164959,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -163983,6 +164972,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + organism substance @@ -164127,6 +165117,7 @@ class labels for these objects. The resulting predictor can be used to attach cl + acellular anatomical structure @@ -193316,12 +194307,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -195697,7 +196682,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -198140,12 +199125,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -198172,12 +199151,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -205617,12 +206590,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -209718,34 +210685,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - - - - - - - - - - - - - - - - - electric sense organ - electroreception organ - electroreceptor organ - - - - @@ -214074,12 +215013,6 @@ class labels for these objects. The resulting predictor can be used to attach cl - - - - - - @@ -220902,7 +221835,7 @@ class labels for these objects. The resulting predictor can be used to attach cl - + @@ -223410,6 +224343,32 @@ class labels for these objects. The resulting predictor can be used to attach cl + + + + + + + + + + + + + + + + + + + + + + epithelium of anorectum + + + + @@ -223500,6 +224459,18 @@ class labels for these objects. The resulting predictor can be used to attach cl + + + + + + + + + + + + diff --git a/src/ontology/empty-edit.owl b/src/ontology/empty-edit.owl index eabd0a2..cdd964c 100644 --- a/src/ontology/empty-edit.owl +++ b/src/ontology/empty-edit.owl @@ -255,7 +255,38 @@ Declaration(Class(obo:EMPTY_0000227)) Declaration(Class(obo:EMPTY_0000228)) Declaration(Class(obo:EMPTY_0000229)) Declaration(Class(obo:EMPTY_0000230)) +Declaration(Class(obo:EMPTY_0000231)) +Declaration(Class(obo:EMPTY_0000232)) +Declaration(Class(obo:EMPTY_0000233)) +Declaration(Class(obo:EMPTY_0000234)) +Declaration(Class(obo:EMPTY_0000235)) +Declaration(Class(obo:EMPTY_0000236)) +Declaration(Class(obo:EMPTY_0000237)) +Declaration(Class(obo:EMPTY_0000238)) +Declaration(Class(obo:EMPTY_0000239)) +Declaration(Class(obo:EMPTY_0000240)) +Declaration(Class(obo:EMPTY_0000241)) +Declaration(Class(obo:EMPTY_0000242)) +Declaration(Class(obo:EMPTY_0000243)) +Declaration(Class(obo:EMPTY_0000244)) +Declaration(Class(obo:EMPTY_0000245)) +Declaration(Class(obo:EMPTY_0000246)) +Declaration(Class(obo:EMPTY_0000247)) +Declaration(Class(obo:EMPTY_0000248)) +Declaration(Class(obo:EMPTY_0000249)) +Declaration(Class(obo:EMPTY_0000250)) +Declaration(Class(obo:EMPTY_0000251)) +Declaration(Class(obo:EMPTY_0000252)) +Declaration(Class(obo:EMPTY_0000253)) +Declaration(Class(obo:EMPTY_0000254)) +Declaration(Class(obo:EMPTY_0000255)) +Declaration(Class(obo:EMPTY_0000256)) +Declaration(Class(obo:EMPTY_0000257)) +Declaration(Class(obo:EMPTY_0000258)) +Declaration(Class(obo:format_1929)) +Declaration(Class(obo:NCBITaxon:637912)) Declaration(Class(obo:NCIT_C14240)) +Declaration(Class(obo:NCIT_C16856)) Declaration(Class(obo:NCIT_C172272)) Declaration(Class(obo:NCIT_C179817)) Declaration(Class(obo:NCIT_C201530)) @@ -343,298 +374,298 @@ SubClassOf(obo:EMPTY_0000005 obo:EMPTY_0000002) # Class: obo:EMPTY_0000006 (elevated plus maze: open arm (north) - entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000006 "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000006 "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (North)'. The 'Open Arm (North)' is one of the two open arms, distinguished by its assigned 'north' orientation or designation in the experimental setup. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000006 "elevated plus maze: open arm (north) - entries"@en) SubClassOf(obo:EMPTY_0000006 obo:EMPTY_0000003) # Class: obo:EMPTY_0000007 (elevated plus maze: open arm (south) - entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000007 "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000007 "In the Elevated Plus Maze task, this counts the number of times the animal's body (typically defined by its center point or a significant portion) fully enters the user-defined zone designated as 'Open Arm (South)'. The 'Open Arm (South)' is one of the two open arms, distinguished by its assigned 'south' orientation or designation in the experimental setup. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000007 "elevated plus maze: open arm (south) - entries"@en) SubClassOf(obo:EMPTY_0000007 obo:EMPTY_0000003) # Class: obo:EMPTY_0000008 (elevated plus maze: open arm total entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000008 "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000008 "In the Elevated Plus Maze task, this represents the total number of times the animal's body (typically defined by its center point or a significant portion) fully enters the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). It is a common measure of exploration and anxiety. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000008 "elevated plus maze: open arm total entries"@en) SubClassOf(obo:EMPTY_0000008 obo:EMPTY_0000003) # Class: obo:EMPTY_0000009 (elevated plus maze: open arm (north) - head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000009 "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000009 "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (North)' zone, irrespective of full body entry. This can indicate risk assessment or tentative exploration of the arm designated as 'north'. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000009 "elevated plus maze: open arm (north) - head entries"@en) SubClassOf(obo:EMPTY_0000009 obo:EMPTY_0000003) # Class: obo:EMPTY_0000010 (elevated plus maze: open arm (south) - head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000010 "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000010 "In the Elevated Plus Maze task, this counts the number of times the animal's head (specifically tracked by the software) enters the user-defined 'Open Arm (South)' zone, irrespective of full body entry, often reflecting cautious exploration of the open arm designated as 'south'. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000010 "elevated plus maze: open arm (south) - head entries"@en) SubClassOf(obo:EMPTY_0000010 obo:EMPTY_0000003) # Class: obo:EMPTY_0000011 (elevated plus maze: open arm total head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000011 "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000011 "In the Elevated Plus Maze task, this is the total number of times the animal's head (specifically tracked by the software) enters any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'), considered an indicator of risk-assessment behavior. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000011 "elevated plus maze: open arm total head entries"@en) SubClassOf(obo:EMPTY_0000011 obo:EMPTY_0000003) # Class: obo:EMPTY_0000012 (elevated plus maze: open arm (north) - time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000012 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000012 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (North)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000012 "elevated plus maze: open arm (north) - time"@en) SubClassOf(obo:EMPTY_0000012 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000012 obo:EMPTY_0000090) # Class: obo:EMPTY_0000013 (elevated plus maze: open arm (south) - time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000013 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000013 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Open Arm (South)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000013 "elevated plus maze: open arm (south) - time"@en) SubClassOf(obo:EMPTY_0000013 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000013 obo:EMPTY_0000090) # Class: obo:EMPTY_0000014 (elevated plus maze: open arm total time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000014 "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000014 "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Less time is generally indicative of higher anxiety. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000014 "elevated plus maze: open arm total time"@en) SubClassOf(obo:EMPTY_0000014 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000014 obo:EMPTY_0000090) # Class: obo:EMPTY_0000015 (elevated plus maze: open arm total - percent time during test duration) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000015 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit of measure: %") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000015 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated open arm zones (e.g., 'Open Arm (North)' and 'Open Arm (South)'). Unit: %") AnnotationAssertion(rdfs:label obo:EMPTY_0000015 "elevated plus maze: open arm total - percent time during test duration"@en) SubClassOf(obo:EMPTY_0000015 obo:EMPTY_0000003) # Class: obo:EMPTY_0000016 (elevated plus maze: open arm (north) - latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000016 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000016 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (North)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000016 "elevated plus maze: open arm (north) - latency to first entry"@en) SubClassOf(obo:EMPTY_0000016 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000016 obo:EMPTY_0000091) # Class: obo:EMPTY_0000017 (elevated plus maze: open arm (south) - latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000017 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000017 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Open Arm (South)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000017 "elevated plus maze: open arm (south) - latency to first entry"@en) SubClassOf(obo:EMPTY_0000017 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000017 obo:EMPTY_0000091) # Class: obo:EMPTY_0000018 (elevated plus maze: open arm total latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000018 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000018 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'). Longer latencies often suggest higher anxiety. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000018 "elevated plus maze: open arm total latency to first entry"@en) SubClassOf(obo:EMPTY_0000018 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000018 obo:EMPTY_0000091) # Class: obo:EMPTY_0000019 (elevated plus maze: open arm (north) - time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000019 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000019 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (North)' zone, as detected by the tracking software. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000019 "elevated plus maze: open arm (north) - time moving towards"@en) SubClassOf(obo:EMPTY_0000019 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000019 obo:EMPTY_0000090) # Class: obo:EMPTY_0000020 (elevated plus maze: open arm (south) - time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000020 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000020 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Open Arm (South)' zone, as detected by the tracking software. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000020 "elevated plus maze: open arm (south) - time moving towards"@en) SubClassOf(obo:EMPTY_0000020 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000020 obo:EMPTY_0000090) # Class: obo:EMPTY_0000021 (elevated plus maze: open arm total time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000021 "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000021 "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), reflecting approach motivation. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000021 "elevated plus maze: open arm total time moving towards"@en) SubClassOf(obo:EMPTY_0000021 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000021 obo:EMPTY_0000090) # Class: obo:EMPTY_0000022 (elevated plus maze: open arm (north) - time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000022 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000022 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior (a state of immobility except for respiratory movements) while within the user-defined 'Open Arm (North)' zone. Freezing is a common fear response. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000022 "elevated plus maze: open arm (north) - time freezing"@en) SubClassOf(obo:EMPTY_0000022 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000022 obo:EMPTY_0000090) # Class: obo:EMPTY_0000023 (elevated plus maze: open arm (south) - time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000023 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000023 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Open Arm (South)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000023 "elevated plus maze: open arm (south) - time freezing"@en) SubClassOf(obo:EMPTY_0000023 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000023 obo:EMPTY_0000090) # Class: obo:EMPTY_0000024 (elevated plus maze: open arm total time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000024 "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000024 "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated open arm zones (e.g., 'Open Arm (North)' or 'Open Arm (South)'), indicating fear or anxiety. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000024 "elevated plus maze: open arm total time freezing"@en) SubClassOf(obo:EMPTY_0000024 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000024 obo:EMPTY_0000090) # Class: obo:EMPTY_0000025 (elevated plus maze: closed arm (west) - entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000025 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000025 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (West)' zone, representing the enclosed arm designated as 'west'. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000025 "elevated plus maze: closed arm (west) - entries"@en) SubClassOf(obo:EMPTY_0000025 obo:EMPTY_0000003) # Class: obo:EMPTY_0000026 (elevated plus maze: closed arm (east) - entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000026 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000026 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Closed Arm (East)' zone, representing the enclosed arm designated as 'east'. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000026 "elevated plus maze: closed arm (east) - entries"@en) SubClassOf(obo:EMPTY_0000026 obo:EMPTY_0000003) # Class: obo:EMPTY_0000027 (elevated plus maze: closed arm total entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000027 "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000027 "In the Elevated Plus Maze task, this is the total number of times the animal's body fully enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). It is often used as an indicator of general locomotor activity. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000027 "elevated plus maze: closed arm total entries"@en) SubClassOf(obo:EMPTY_0000027 obo:EMPTY_0000003) # Class: obo:EMPTY_0000028 (elevated plus maze: closed arm (west) - head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000028 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000028 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (West)' zone. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000028 "elevated plus maze: closed arm (west) - head entries"@en) SubClassOf(obo:EMPTY_0000028 obo:EMPTY_0000003) # Class: obo:EMPTY_0000029 (elevated plus maze: closed arm (east) - head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000029 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000029 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Closed Arm (East)' zone. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000029 "elevated plus maze: closed arm (east) - head entries"@en) SubClassOf(obo:EMPTY_0000029 obo:EMPTY_0000003) # Class: obo:EMPTY_0000030 (elevated plus maze: closed arm total head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000030 "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000030 "In the Elevated Plus Maze task, this is the total number of times the animal's head enters any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000030 "elevated plus maze: closed arm total head entries"@en) SubClassOf(obo:EMPTY_0000030 obo:EMPTY_0000003) # Class: obo:EMPTY_0000031 (elevated plus maze: closed arm (west) - time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000031 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000031 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (West)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000031 "elevated plus maze: closed arm (west) - time"@en) SubClassOf(obo:EMPTY_0000031 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000031 obo:EMPTY_0000090) # Class: obo:EMPTY_0000032 (elevated plus maze: closed arm (east) - time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000032 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000032 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Closed Arm (East)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000032 "elevated plus maze: closed arm (east) - time"@en) SubClassOf(obo:EMPTY_0000032 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000032 obo:EMPTY_0000090) # Class: obo:EMPTY_0000033 (elevated plus maze: closed arm total time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000033 "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000033 "In the Elevated Plus Maze task, this is the cumulative total duration the animal's body spends within any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Animals typically spend more time in these 'safer' areas. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000033 "elevated plus maze: closed arm total time"@en) SubClassOf(obo:EMPTY_0000033 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000033 obo:EMPTY_0000090) # Class: obo:EMPTY_0000034 (elevated plus maze: closed arm total - percent time during test duration) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000034 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit of measure: %") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000034 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in any of the designated closed arm zones (e.g., 'Closed Arm (West)' and 'Closed Arm (East)'). Unit: %") AnnotationAssertion(rdfs:label obo:EMPTY_0000034 "elevated plus maze: closed arm total - percent time during test duration"@en) SubClassOf(obo:EMPTY_0000034 obo:EMPTY_0000003) # Class: obo:EMPTY_0000035 (elevated plus maze: closed arm (west) - latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000035 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000035 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (West)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000035 "elevated plus maze: closed arm (west) - latency to first entry"@en) SubClassOf(obo:EMPTY_0000035 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000035 obo:EMPTY_0000091) # Class: obo:EMPTY_0000036 (elevated plus maze: closed arm (east) - latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000036 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000036 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Closed Arm (East)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000036 "elevated plus maze: closed arm (east) - latency to first entry"@en) SubClassOf(obo:EMPTY_0000036 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000036 obo:EMPTY_0000091) # Class: obo:EMPTY_0000037 (elevated plus maze: closed arm total latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000037 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000037 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000037 "elevated plus maze: closed arm total latency to first entry"@en) SubClassOf(obo:EMPTY_0000037 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000037 obo:EMPTY_0000091) # Class: obo:EMPTY_0000038 (elevated plus maze: closed arm (west) - time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000038 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000038 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (West)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000038 "elevated plus maze: closed arm (west) - time moving towards"@en) SubClassOf(obo:EMPTY_0000038 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000038 obo:EMPTY_0000090) # Class: obo:EMPTY_0000039 (elevated plus maze: closed arm (east) - time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000039 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000039 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Closed Arm (East)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000039 "elevated plus maze: closed arm (east) - time moving towards"@en) SubClassOf(obo:EMPTY_0000039 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000039 obo:EMPTY_0000090) # Class: obo:EMPTY_0000040 (elevated plus maze: closed arm total time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000040 "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000040 "In the Elevated Plus Maze task, this is the cumulative duration the animal spends actively moving towards any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000040 "elevated plus maze: closed arm total time moving towards"@en) SubClassOf(obo:EMPTY_0000040 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000040 obo:EMPTY_0000090) # Class: obo:EMPTY_0000041 (elevated plus maze: closed arm (west) - time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000041 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000041 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (West)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000041 "elevated plus maze: closed arm (west) - time freezing"@en) SubClassOf(obo:EMPTY_0000041 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000041 obo:EMPTY_0000090) # Class: obo:EMPTY_0000042 (elevated plus maze: closed arm (east) - time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000042 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000042 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Closed Arm (East)' zone. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000042 "elevated plus maze: closed arm (east) - time freezing"@en) SubClassOf(obo:EMPTY_0000042 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000042 obo:EMPTY_0000090) # Class: obo:EMPTY_0000043 (elevated plus maze: closed arm total time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000043 "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000043 "In the Elevated Plus Maze task, this is the cumulative duration the animal exhibits freezing behavior while within any of the designated closed arm zones (e.g., 'Closed Arm (West)' or 'Closed Arm (East)'). Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000043 "elevated plus maze: closed arm total time freezing"@en) SubClassOf(obo:EMPTY_0000043 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000043 obo:EMPTY_0000090) # Class: obo:EMPTY_0000044 (elevated plus maze: center - entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000044 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000044 "In the Elevated Plus Maze task, this counts the number of times the animal's body fully enters the user-defined 'Center' zone of the maze, typically from one of the arms. The center zone is the area where all four arms meet. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000044 "elevated plus maze: center - entries"@en) SubClassOf(obo:EMPTY_0000044 obo:EMPTY_0000003) # Class: obo:EMPTY_0000045 (elevated plus maze: center - head entries) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000045 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000045 "In the Elevated Plus Maze task, this counts the number of times the animal's head enters the user-defined 'Center' zone of the maze. Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000045 "elevated plus maze: center - head entries"@en) SubClassOf(obo:EMPTY_0000045 obo:EMPTY_0000003) # Class: obo:EMPTY_0000046 (elevated plus maze: center - time) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000046 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000046 "In the Elevated Plus Maze task, this measures the total duration the animal's body spends within the user-defined 'Center' zone. Time in the center can indicate decision-making or risk assessment. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000046 "elevated plus maze: center - time"@en) SubClassOf(obo:EMPTY_0000046 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000046 obo:EMPTY_0000090) # Class: obo:EMPTY_0000047 (elevated plus maze: center - percent time during test duration) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000047 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit of measure: %") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000047 "In the Elevated Plus Maze task, this represents the percentage of the total test duration that the animal spends in the user-defined 'Center' zone of the maze. Unit: %") AnnotationAssertion(rdfs:label obo:EMPTY_0000047 "elevated plus maze: center - percent time during test duration"@en) SubClassOf(obo:EMPTY_0000047 obo:EMPTY_0000003) # Class: obo:EMPTY_0000048 (elevated plus maze: center - latency to first entry) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000048 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000048 "In the Elevated Plus Maze task, this measures the time elapsed from the start of the test until the animal makes its first full body entry into the user-defined 'Center' zone. If the animal starts in the center, this value may be zero or not applicable. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000048 "elevated plus maze: center - latency to first entry"@en) SubClassOf(obo:EMPTY_0000048 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000048 obo:EMPTY_0000091) # Class: obo:EMPTY_0000049 (elevated plus maze: center - time moving towards) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000049 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000049 "In the Elevated Plus Maze task, this measures the total duration the animal spends actively moving towards the user-defined 'Center' zone of the maze (e.g., from an arm). Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000049 "elevated plus maze: center - time moving towards"@en) SubClassOf(obo:EMPTY_0000049 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000049 obo:EMPTY_0000090) # Class: obo:EMPTY_0000050 (elevated plus maze: center - time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000050 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000050 "In the Elevated Plus Maze task, this measures the total duration the animal exhibits freezing behavior while within the user-defined 'Center' zone of the maze. Freezing in this relatively exposed area can indicate high anxiety. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000050 "elevated plus maze: center - time freezing"@en) SubClassOf(obo:EMPTY_0000050 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000050 obo:EMPTY_0000090) @@ -653,7 +684,7 @@ SubClassOf(obo:EMPTY_0000052 obo:EMPTY_0000084) # Class: obo:EMPTY_0000053 (fear-potentiated startle: baseline acoustic startle response amplitude) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000053 "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit of measure: arbitrary units or standardized score.") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000053 "In the Fear-potentiated startle paradigm, this is the amplitude of the acoustic startle response (ASR) measured in response to a startle-eliciting stimulus (e.g., 95-dB white noise burst) prior to any fear conditioning procedures, typically assessed during habituation or pre-conditioning phase. This measurement serves as a reference point for later comparisons with post-conditioning startle responses. Unit: arbitrary units or standardized score.") AnnotationAssertion(rdfs:label obo:EMPTY_0000053 "fear-potentiated startle: baseline acoustic startle response amplitude"@en) SubClassOf(obo:EMPTY_0000053 obo:EMPTY_0000004) SubClassOf(obo:EMPTY_0000053 obo:EMPTY_0000162) @@ -685,7 +716,7 @@ SubClassOf(obo:EMPTY_0000057 obo:EMPTY_0000093) # Class: obo:EMPTY_0000058 (fear-potentiated startle: apparatus chamber identifier) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000058 "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit of measure: count or identifier string") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000058 "Identifier for the specific Plexiglas enclosure or sound-attenuating chamber within the Fear-Potentiated Startle (FPS) apparatus (e.g., San Diego Instruments SR-Lab) in which a subject was tested for a given trial. Unit: count or identifier string") AnnotationAssertion(rdfs:label obo:EMPTY_0000058 "fear-potentiated startle: apparatus chamber identifier"@en) SubClassOf(obo:EMPTY_0000058 obo:EMPTY_0000093) @@ -697,40 +728,40 @@ SubClassOf(obo:EMPTY_0000059 obo:EMPTY_0000084) # Class: obo:EMPTY_0000060 (acoustic startle response: number of samples) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000060 "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit of measure: count") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000060 "The total number of data points (samples) recorded and analyzed for a single acoustic startle response, typically within a defined time window following stimulus onset (e.g., a 200-ms window as mentioned in the manuscript). Unit: count") AnnotationAssertion(rdfs:label obo:EMPTY_0000060 "acoustic startle response: number of samples"@en) SubClassOf(obo:EMPTY_0000060 obo:EMPTY_0000093) # Class: obo:EMPTY_0000061 (acoustic startle response: sampling rate) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000061 "The rate at which the analog startle response signal was digitized during data acquisition. Unit of measure: Hertz (Hz)") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000061 "The rate at which the analog startle response signal was digitized during data acquisition. Unit: Hertz (Hz)") AnnotationAssertion(rdfs:label obo:EMPTY_0000061 "acoustic startle response: sampling rate"@en) SubClassOf(obo:EMPTY_0000061 obo:EMPTY_0000093) # Class: obo:EMPTY_0000062 (acoustic startle response: startle window onset amplitude) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000062 "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit of measure: millivolts (mV) or arbitrary units based on transducer calibration.") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000062 "The amplitude of the digitized acoustic startle response signal at the very beginning (onset) of the defined analysis window (e.g., a 200-ms window) used to quantify the reflex. Unit: millivolts (mV) or arbitrary units based on transducer calibration.") AnnotationAssertion(rdfs:label obo:EMPTY_0000062 "acoustic startle response: startle window onset amplitude"@en) SubClassOf(obo:EMPTY_0000062 obo:EMPTY_0000004) SubClassOf(obo:EMPTY_0000062 obo:EMPTY_0000162) # Class: obo:EMPTY_0000063 (acoustic startle response: maximum amplitude) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000063 "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit of measure: millivolts (mV) or arbitrary units.") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000063 "The peak amplitude of the acoustic startle response (e.g., 'jump amplitude') detected within the defined analysis window (e.g., 200-ms window) for a given trial. Unit: millivolts (mV) or arbitrary units.") AnnotationAssertion(rdfs:label obo:EMPTY_0000063 "acoustic startle response: maximum amplitude"@en) SubClassOf(obo:EMPTY_0000063 obo:EMPTY_0000004) SubClassOf(obo:EMPTY_0000063 obo:EMPTY_0000162) # Class: obo:EMPTY_0000064 (acoustic startle response: time to maximum amplitude) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000064 "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit of measure: milliseconds (ms)") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000064 "The latency from the onset of the startle-eliciting stimulus (or the beginning of the analysis window) to the occurrence of the maximum (peak) amplitude of the acoustic startle response. Unit: milliseconds (ms)") AnnotationAssertion(rdfs:label obo:EMPTY_0000064 "acoustic startle response: time to maximum amplitude"@en) SubClassOf(obo:EMPTY_0000064 obo:EMPTY_0000004) SubClassOf(obo:EMPTY_0000064 obo:EMPTY_0000091) # Class: obo:EMPTY_0000065 (acoustic startle response: average amplitude) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000065 "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit of measure: millivolts (mV) or arbitrary units.") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000065 "The average amplitude of the digitized acoustic startle response signal calculated across the entire duration of the defined analysis window (e.g., 200-ms window). Unit: millivolts (mV) or arbitrary units.") AnnotationAssertion(rdfs:label obo:EMPTY_0000065 "acoustic startle response: average amplitude"@en) SubClassOf(obo:EMPTY_0000065 obo:EMPTY_0000004) SubClassOf(obo:EMPTY_0000065 obo:EMPTY_0000162) @@ -750,7 +781,7 @@ SubClassOf(obo:EMPTY_0000067 obo:EMPTY_0000093) # Class: obo:EMPTY_0000068 (elevated plus maze: test duration) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000068 "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000068 "In the Elevated Plus Maze task, this is the time of the total test duration in seconds'). Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000068 "elevated plus maze: test duration"@en) SubClassOf(obo:EMPTY_0000068 obo:EMPTY_0000003) SubClassOf(obo:EMPTY_0000068 obo:EMPTY_0000090) @@ -1455,13 +1486,13 @@ SubClassOf(obo:EMPTY_0000174 obo:EMPTY_0000164) # Class: obo:EMPTY_0000175 (contextual fear conditioning: time freezing) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000175 "The number of seconds the individual spent freezing during a given period of time. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000175 "The number of seconds the individual spent freezing during a given period of time. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000175 "contextual fear conditioning: time freezing"@en) SubClassOf(obo:EMPTY_0000175 obo:EMPTY_0000163) # Class: obo:EMPTY_0000176 (contextual fear conditioning: block duration) -AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000176 "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit of measure: seconds") +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000176 "In the contextual fear conditioning paradigm, this is the time of the block duration in seconds. Unit: seconds") AnnotationAssertion(rdfs:label obo:EMPTY_0000176 "contextual fear conditioning: block duration"@en) SubClassOf(obo:EMPTY_0000176 obo:EMPTY_0000163) SubClassOf(obo:EMPTY_0000176 obo:EMPTY_0000164) @@ -1801,5 +1832,173 @@ AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000230 "A digital file for which AnnotationAssertion(rdfs:label obo:EMPTY_0000230 "unknown electronic file type"@en) SubClassOf(obo:EMPTY_0000230 obo:NCIT_C172272) +# Class: obo:EMPTY_0000231 (C. elegans chemotaxis assay parameter) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000231 "A parameter that specifies the technical settings, environmental conditions, or experimental design of a chemotaxis assay involving Caenorhabditis elegans.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000231 "C. elegans chemotaxis assay parameter"@en) +SubClassOf(obo:EMPTY_0000231 obo:EMPTY_0000101) + +# Class: obo:EMPTY_0000232 (C. elegans chemotaxis assay parameter: chemoattractant mixture table) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000232 "A table containing the quantities and identities of all chemicals used as a chemoattractant (e.g., isoamyl alcohol, diacetyl) to elicit a directed movement response in C. elegans.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000232 "C. elegans chemotaxis assay parameter: chemoattractant mixture table"@en) +SubClassOf(obo:EMPTY_0000232 obo:EMPTY_0000231) + +# Class: obo:EMPTY_0000233 (C. elegans chemotaxis assay parameter: chemoattractant mixture volume) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000233 "The volume of the chemoattractant mixture pipetted onto the agar plate in a chemotaxis assay. Unit: microliters (μL).") +AnnotationAssertion(rdfs:label obo:EMPTY_0000233 "C. elegans chemotaxis assay parameter: chemoattractant mixture volume"@en) +SubClassOf(obo:EMPTY_0000233 obo:EMPTY_0000231) + +# Class: obo:EMPTY_0000234 (C. elegans chemotaxis assay parameter: assay duration) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000234 "The total time elapsed from the point at which C. elegans are placed on the assay plate until the movement is arrested or the final positions are recorded. Unit: minutes.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000234 "C. elegans chemotaxis assay parameter: assay duration"@en) +SubClassOf(obo:EMPTY_0000234 obo:EMPTY_0000231) + +# Class: obo:EMPTY_0000235 (C. elegans chemotaxis assay measurement) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000235 "A quantitative or qualitative value derived from a C. elegans chemotaxis assay, typically describing the efficiency or directionality of the animals' movement toward or away from a chemical source.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000235 "C. elegans chemotaxis assay measurement"@en) +SubClassOf(obo:EMPTY_0000235 obo:EMPTY_0000100) + +# Class: obo:EMPTY_0000236 (C. elegans chemotaxis assay measurement: McCutcheon index) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000236 "A behavioral measurement of chemotactic efficiency defined as the ratio of the straight-line displacement toward the attractant to the total path length traveled by the organism. Values range from -1 to 1.") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:EMPTY_0000236 "chemotactic ratio"@en) +AnnotationAssertion(rdfs:label obo:EMPTY_0000236 "C. elegans chemotaxis assay measurement: McCutcheon index"@en) +SubClassOf(obo:EMPTY_0000236 obo:EMPTY_0000235) + +# Class: obo:EMPTY_0000237 (C. elegans chemotaxis assay measurement: mean velocity) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000237 "The average speed of a C. elegans individual or population during the duration of the chemotaxis assay. Unit: micrometers per second (µm/s).") +AnnotationAssertion(rdfs:label obo:EMPTY_0000237 "C. elegans chemotaxis assay measurement: mean velocity"@en) +SubClassOf(obo:EMPTY_0000237 obo:EMPTY_0000235) + +# Class: obo:EMPTY_0000238 (investigator-defined strain) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000238 "A specific genetic variant or line of an organism designated by the investigator, often containing unique mutations, transgenes, or genomic edits not yet categorized in a public repository.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000238 "investigator-defined strain"@en) +SubClassOf(obo:EMPTY_0000238 obo:EMPTY_0000076) + +# Class: obo:EMPTY_0000239 (C. elegans strain) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000239 "A specific strain of Caenorhabditis elegans, identified by its genotype or a standard nomenclature (e.g., N2, CB4856), used in experimental procedures.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000239 "C. elegans strain"@en) +SubClassOf(obo:EMPTY_0000239 obo:EMPTY_0000238) + +# Class: obo:EMPTY_0000240 (BAB9001) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000240 "A C. elegans strain with the genotype daf-22 (m130). This strain was originally obtained from the Caenorhabditis Genetics Center (CGC) as strain DR476 and subsequently outcrossed three times. [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000240 "BAB9001"@en) +SubClassOf(obo:EMPTY_0000240 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000241 (BAB9002) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000241 "A C. elegans klp-6 rescue strain with the genotype klp-6 (my8); Pklp-6::GFP::KLP-6 (array, IndEx 9002). [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000241 "BAB9002"@en) +SubClassOf(obo:EMPTY_0000241 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000242 (TM5848) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000242 "A C. elegans strain with the genotype cil-7 (tm5848) I, exhibiting a him phenotype. This strain was obtained from the National BioResource Project (NBRP), Japan. [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000242 "TM5848"@en) +SubClassOf(obo:EMPTY_0000242 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000243 (PT3602) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000243 "A C. elegans strain with the genotype cil-7 (my61[cil-7::mNG])I; him-5(e1490) V. This strain was provided as a gift from the Maureen Barr lab. [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000243 "PT3602"@en) +SubClassOf(obo:EMPTY_0000243 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000244 (BAB9003) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000244 "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003). [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000244 "BAB9003"@en) +SubClassOf(obo:EMPTY_0000244 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000245 (BAB9004) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000245 "A C. elegans strain with the genotype PT3602; Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000245 "BAB9004"@en) +SubClassOf(obo:EMPTY_0000245 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000246 (BAB9005) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000246 "A C. elegans strain with the genotype PT3602; Pnlp-43_hCaspase nZ (array IndEx 9003) and Pklp-6_hCaspase Cz (array IndEx 9004). [Source: https://doi.org/TBD]") +AnnotationAssertion(rdfs:label obo:EMPTY_0000246 "BAB9005"@en) +SubClassOf(obo:EMPTY_0000246 obo:EMPTY_0000239) + +# Class: obo:EMPTY_0000247 (fluorescence imaging measurement) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000247 "fluorescence imaging measurement") +AnnotationAssertion(rdfs:label obo:EMPTY_0000247 "fluorescence imaging measurement"@en) +SubClassOf(obo:EMPTY_0000247 obo:EMPTY_0000001) + +# Class: obo:EMPTY_0000248 (mean fluorescence intensity) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000248 "Mean fluorescence intensity. Unit: arbitrary units (AU)") +AnnotationAssertion(rdfs:label obo:EMPTY_0000248 "mean fluorescence intensity"@en) +SubClassOf(obo:EMPTY_0000248 obo:EMPTY_0000247) + +# Class: obo:EMPTY_0000249 (fluorescent punctal count) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000249 "A quantitative measurement of the number of distinct fluorescent spots or puncta detected within a defined region of interest in a fluorescence image. Unit: count") +AnnotationAssertion(rdfs:label obo:EMPTY_0000249 "fluorescent punctal count"@en) +SubClassOf(obo:EMPTY_0000249 obo:EMPTY_0000247) + +# Class: obo:EMPTY_0000250 (fluorescence imaging parameter) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000250 "A specific parameter related to fluorescence imaging acquisition or assay.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000250 "fluorescence imaging parameter"@en) +SubClassOf(obo:EMPTY_0000250 obo:EMPTY_0000080) + +# Class: obo:EMPTY_0000251 (fluorescence target ontology identifier) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000251 "fluorescence target ontology identifier") +AnnotationAssertion(rdfs:label obo:EMPTY_0000251 "fluorescence target ontology identifier"@en) +SubClassOf(obo:EMPTY_0000251 obo:EMPTY_0000250) + +# Class: obo:EMPTY_0000252 (fluorescence target name) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000252 "fluorescence target name") +AnnotationAssertion(rdfs:label obo:EMPTY_0000252 "fluorescence target name"@en) +SubClassOf(obo:EMPTY_0000252 obo:EMPTY_0000250) + +# Class: obo:EMPTY_0000253 (SnapGene file format) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000253 "A .dna file format designed for storing annotated DNA sequences, including linear/circular topology, features, primers, and enzyme sites.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000253 "SnapGene file format"@en) +SubClassOf(obo:EMPTY_0000253 obo:format_1929) + +# Class: obo:EMPTY_0000254 (Escherichia coli OP50: heat-killed) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000254 "A preparation of Escherichia coli strain OP50 that has been rendered non-viable through the application of heat, typically used as a non-proliferating food source in C. elegans assays.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000254 "Escherichia coli OP50: heat-killed"@en) +SubClassOf(obo:EMPTY_0000254 obo:NCBITaxon_637912) + +# Class: obo:EMPTY_0000255 (C. elegans transfer method: M9 buffer wash) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000255 "Method used to transfer C. elegans whereby an M9 buffer is used to wash C. elegans off of an agar plate. Animals can then be transferred using a piper.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000255 "C. elegans transfer method: M9 buffer wash"@en) +SubClassOf(obo:EMPTY_0000255 obo:EMPTY_0000189) + +# Class: obo:EMPTY_0000256 (C. elegans transfer method: titanium pick) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000256 "Method used to transfer C. elegans whereby a titanium pick is used to scoop animals off of an agar plate.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000256 "C. elegans transfer method: titanium pick"@en) +SubClassOf(obo:EMPTY_0000256 obo:EMPTY_0000189) + +# Class: obo:EMPTY_0000257 (C. elegans chemotaxis assay: video recording) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000257 "A video recording capturing the behavior of C. elegans during a chemotaxis assay.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000257 "C. elegans chemotaxis assay: video recording"@en) +SubClassOf(obo:EMPTY_0000257 obo:EMPTY_0000129) + +# Class: obo:EMPTY_0000258 (fluorescence imaging data) + +AnnotationAssertion(obo:IAO_0000115 obo:EMPTY_0000258 "An image or video acquired using fluorescence microscopy.") +AnnotationAssertion(rdfs:label obo:EMPTY_0000258 "fluorescence imaging data"@en) +SubClassOf(obo:EMPTY_0000258 obo:NCIT_C16856) ) \ No newline at end of file diff --git a/src/ontology/empty-edit.properties b/src/ontology/empty-edit.properties index ea31aeb..d83ca5c 100644 --- a/src/ontology/empty-edit.properties +++ b/src/ontology/empty-edit.properties @@ -1,4 +1,4 @@ -#Thu Feb 12 19:34:43 GMT 2026 +#Mon Mar 30 22:06:40 BST 2026 jdbc.password= jdbc.user= jdbc.url= diff --git a/src/ontology/imports/ncbitaxon_import.owl b/src/ontology/imports/ncbitaxon_import.owl index 1a971f2..b870c5b 100644 --- a/src/ontology/imports/ncbitaxon_import.owl +++ b/src/ontology/imports/ncbitaxon_import.owl @@ -7,11 +7,13 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2026-02-23") +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -38,6 +40,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -54,12 +57,17 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -88,6 +96,16 @@ AnnotationAssertion(rdfs:label "root") +# Class: (Pseudomonadota) + +AnnotationAssertion(rdfs:label "Pseudomonadota") +SubClassOf( ) + +# Class: (Gammaproteobacteria) + +AnnotationAssertion(rdfs:label "Gammaproteobacteria") +SubClassOf( ) + # Class: (Zygnematophyceae) AnnotationAssertion(rdfs:label "Zygnematophyceae") @@ -218,6 +236,11 @@ SubClassOf( "Gnetales") SubClassOf( ) +# Class: (Pseudomonadati) + +AnnotationAssertion(rdfs:label "Pseudomonadati") +SubClassOf( ) + # Class: (Magnoliopsida) AnnotationAssertion(rdfs:label "Magnoliopsida") @@ -298,11 +321,26 @@ SubClassOf( "Saccharomyces cerevisiae") SubClassOf( ) +# Class: (Enterobacteriaceae) + +AnnotationAssertion(rdfs:label "Enterobacteriaceae") +SubClassOf( ) + # Class: (Amoebozoa) AnnotationAssertion(rdfs:label "Amoebozoa") SubClassOf( ) +# Class: (Escherichia) + +AnnotationAssertion(rdfs:label "Escherichia") +SubClassOf( ) + +# Class: (Escherichia coli) + +AnnotationAssertion(rdfs:label "Escherichia coli") +SubClassOf( ) + # Class: (Dictyostelium) AnnotationAssertion(rdfs:label "Dictyostelium") @@ -318,6 +356,11 @@ SubClassOf( "Spermatophyta") SubClassOf( ) +# Class: (Escherichia coli OP50) + +AnnotationAssertion(rdfs:label "Escherichia coli OP50") +SubClassOf( ) + # Class: (saccharomyceta) AnnotationAssertion(rdfs:label "saccharomyceta") @@ -328,5 +371,10 @@ SubClassOf( "Euphyllophyta") SubClassOf( ) +# Class: (Enterobacterales) + +AnnotationAssertion(rdfs:label "Enterobacterales") +SubClassOf( ) + ) \ No newline at end of file diff --git a/src/ontology/imports/ncit_import.owl b/src/ontology/imports/ncit_import.owl index b4d7920..f307fe9 100644 --- a/src/ontology/imports/ncit_import.owl +++ b/src/ontology/imports/ncit_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2026-02-23") + +Annotation( ) +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) @@ -19,10 +19,15 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -37,8 +42,10 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -62,6 +69,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -138,11 +146,27 @@ SubClassOf( "Other Organism Groupings") SubClassOf( ) +# Class: (Clinical or Research Activity) + +AnnotationAssertion(rdfs:label "Clinical or Research Activity") +SubClassOf( ) + # Class: (Technique) AnnotationAssertion(rdfs:label "Technique") SubClassOf( ) +# Class: (Microscopy) + +AnnotationAssertion(rdfs:label "Microscopy") +SubClassOf( ) +SubClassOf( ) + +# Class: (Fluorescence Microscopy) + +AnnotationAssertion(rdfs:label "Fluorescence Microscopy") +SubClassOf( ) + # Class: (Technology) AnnotationAssertion(rdfs:label "Technology") @@ -153,12 +177,22 @@ SubClassOf( "Electronic File Content Type") SubClassOf( ) +# Class: (Imaging Procedure) + +AnnotationAssertion(rdfs:label "Imaging Procedure") +SubClassOf( ) + # Class: (Velocity) AnnotationAssertion(rdfs:label "Velocity") SubClassOf( ) SubClassOf( ) +# Class: (Light Microscopy) + +AnnotationAssertion(rdfs:label "Light Microscopy") +SubClassOf( ) + # Class: (Computer Sciences) AnnotationAssertion(rdfs:label "Computer Sciences") @@ -231,6 +265,11 @@ SubClassOf( "Temperature") SubClassOf( ) +# Class: (Clinical Intervention or Procedure) + +AnnotationAssertion(rdfs:label "Clinical Intervention or Procedure") +SubClassOf( ) + # Class: (Type) AnnotationAssertion(rdfs:label "Type") @@ -241,6 +280,11 @@ SubClassOf( "Diameter") SubClassOf( ) +# Class: (Laboratory Procedure) + +AnnotationAssertion(rdfs:label "Laboratory Procedure") +SubClassOf( ) + # Class: (Volume) AnnotationAssertion(rdfs:label "Volume") @@ -356,6 +400,11 @@ SubClassOf( "Spatial Qualifier") SubClassOf( ) +# Class: (Mixed Category Laboratory Procedure) + +AnnotationAssertion(rdfs:label "Mixed Category Laboratory Procedure") +SubClassOf( ) + # Class: (Optical Density Measurement) AnnotationAssertion(rdfs:label "Optical Density Measurement") diff --git a/src/ontology/imports/obi_import.owl b/src/ontology/imports/obi_import.owl index 8e99009..92f005f 100644 --- a/src/ontology/imports/obi_import.owl +++ b/src/ontology/imports/obi_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2026-02-23") + +Annotation( ) +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) @@ -142,6 +142,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -158,6 +159,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) @@ -473,8 +475,11 @@ Declaration(AnnotationProperty( (definition) +AnnotationAssertion( "A property representing the English language definitions of what NCI means by the concept. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software.") +AnnotationAssertion( "English language definitions of what NCI means by the concept. These are limited to 1024 characters. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software.") AnnotationAssertion( "The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en) AnnotationAssertion( "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en) +AnnotationAssertion( "The official definition.") AnnotationAssertion(rdfs:label "definition") AnnotationAssertion(rdfs:label "definition"@en) AnnotationAssertion(rdfs:label "textual definition") @@ -494,6 +499,14 @@ AnnotationAssertion(rdfs:label (part of) + +AnnotationAssertion( "a core relation that holds between a part and its whole"@en) +AnnotationAssertion(rdfs:label "part of") +AnnotationAssertion(rdfs:label "part of"@en) +InverseObjectProperties( ) +TransitiveObjectProperty() + # Object Property: (has part) AnnotationAssertion( "a core relation that holds between a whole and its part"@en) @@ -900,7 +913,6 @@ SubClassOf( (Eukaryota) -AnnotationAssertion( "eucaryotes") AnnotationAssertion( "eukaryotes") AnnotationAssertion(rdfs:label "Eukaryota") SubClassOf( ) @@ -929,6 +941,7 @@ SubClassOf( (Metazoa) +AnnotationAssertion( "animals") AnnotationAssertion( "metazoans") AnnotationAssertion( "multicellular animals") AnnotationAssertion(rdfs:label "Metazoa") @@ -1486,6 +1499,12 @@ AnnotationAssertion( "amino acid chain") SubClassOf( ) +# Class: (anatomical structure) + +AnnotationAssertion( "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome.") +AnnotationAssertion(rdfs:label "anatomical structure") +SubClassOf( ) + # Class: (material anatomical entity) AnnotationAssertion( "Anatomical entity that has mass.") @@ -1505,7 +1524,7 @@ SubClassOf( "Anatomical group whose component anatomical structures lie in close proximity to each other.") AnnotationAssertion(rdfs:label "anatomical cluster") -SubClassOf( ) +SubClassOf( ) # Class: (anatomical entity) @@ -1517,7 +1536,7 @@ EquivalentClasses( ObjectUnionOf( AnnotationAssertion( "An external caudal extension of the body. In chordates, the tail is post-anal, in other animals the anus ends in the tail.") AnnotationAssertion(rdfs:label "tail") -SubClassOf( ) +SubClassOf( ) # Class: (length unit) diff --git a/src/ontology/imports/omo_import.owl b/src/ontology/imports/omo_import.owl index b17239a..9399534 100644 --- a/src/ontology/imports/omo_import.owl +++ b/src/ontology/imports/omo_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2026-02-23") + +Annotation( ) +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) @@ -66,9 +66,9 @@ AnnotationAssertion(rdfs:label (data item) +# Class: (data entity) -AnnotationAssertion(rdfs:label "data item"@en) +AnnotationAssertion(rdfs:label "data entity"@en) SubClassOf( ) # Class: (information content entity) diff --git a/src/ontology/imports/pato_import.owl b/src/ontology/imports/pato_import.owl index 73c1784..22aef68 100644 --- a/src/ontology/imports/pato_import.owl +++ b/src/ontology/imports/pato_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2026-02-23") +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/ro_import.owl b/src/ontology/imports/ro_import.owl index 9388687..4db083e 100644 --- a/src/ontology/imports/ro_import.owl +++ b/src/ontology/imports/ro_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2026-02-23") +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/uberon_import.owl b/src/ontology/imports/uberon_import.owl index 725d1e1..78a29ad 100644 --- a/src/ontology/imports/uberon_import.owl +++ b/src/ontology/imports/uberon_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2026-02-23") + +Annotation( ) +Annotation(owl:versionInfo "2026-04-04") Declaration(Class()) Declaration(Class()) @@ -39,6 +39,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -90,6 +91,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -103,6 +105,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -186,10 +189,12 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -1082,7 +1087,12 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -1812,6 +1822,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -1999,8 +2010,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -2014,6 +2023,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -2893,6 +2903,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -3334,17 +3345,11 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -3424,7 +3429,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -4273,6 +4277,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -4570,6 +4575,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -5636,7 +5642,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -7107,7 +7113,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -7359,7 +7364,6 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -7873,6 +7877,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) @@ -8084,19 +8089,20 @@ Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) +Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) @@ -8790,6 +8796,7 @@ TransitiveObjectProperty() # Object Property: (capable of) +AnnotationAssertion( "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process.") AnnotationAssertion( "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. ") AnnotationAssertion(rdfs:label "capable of") AnnotationAssertion(rdfs:label "capable of"@en) @@ -9697,6 +9704,69 @@ ObjectPropertyDomain( "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y.") AnnotationAssertion(rdfs:label "device utilizes material"@en) +# Object Property: (chemical relationship) + +AnnotationAssertion(rdfs:label "chemical relationship") + +# Object Property: (is deprotonated form of) + +AnnotationAssertion( "A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations.") +AnnotationAssertion(rdfs:label "is deprotonated form of") +SubObjectPropertyOf( ) +InverseObjectProperties( ) +TransitiveObjectProperty() + +# Object Property: (is protonated form of) + +AnnotationAssertion( "A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B. + +This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations.") +AnnotationAssertion(rdfs:label "is protonated form of") +SubObjectPropertyOf( ) +TransitiveObjectProperty() + +# Object Property: (is tautomer of) + +AnnotationAssertion( "Two chemicals are tautomers if they can be readily interconverted. + +This commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms.") +AnnotationAssertion( "is desmotrope of") +AnnotationAssertion(rdfs:label "is tautomer of"@en) +SubObjectPropertyOf( ) +SymmetricObjectProperty() + +# Object Property: (is substitutent group from) + +AnnotationAssertion( "Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization.") +AnnotationAssertion(rdfs:label "is substitutent group from"@en) +SubObjectPropertyOf( ) + +# Object Property: (has functional parent) + +AnnotationAssertion( "Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. + +For example, the relationship between a salt and a freebased compound is a \"has functional parent\" relationship.") +AnnotationAssertion(rdfs:label "has functional parent"@en) +SubObjectPropertyOf( ) + +# Object Property: (is enantiomer of) + +AnnotationAssertion( "Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center. + +A chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers).") +AnnotationAssertion( "is optical isomer of") +AnnotationAssertion(rdfs:label "is enantiomer of"@en) +SubObjectPropertyOf( ) +SymmetricObjectProperty() + +# Object Property: (has parent hydride) + +AnnotationAssertion( "Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B.") +AnnotationAssertion(rdfs:label "has parent hydride"@en) +SubObjectPropertyOf( ) + # Object Property: (vessel supplies blood to) AnnotationAssertion( "x vessel supplies blood to y if and only if x is a vessel that supplies blood directly or indirectly to an anatomical structure y.") @@ -9809,6 +9879,7 @@ AnnotationAssertion(rdfs:label (subdivision of) AnnotationAssertion(rdfs:label "subdivision of") +SubObjectPropertyOf( ) # Object Property: (transitively anteriorly connected to) @@ -9871,6 +9942,7 @@ SubClassOf( "realizable entity"@en) SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) DisjointClasses( ) @@ -9911,12 +9983,13 @@ AnnotationAssertion(rdfs:label "an # Class: (electron) AnnotationAssertion( "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV.") +AnnotationAssertion( "Elementary particle not affected by the strong force having a spin ½, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV.") AnnotationAssertion(rdfs:label "electron") SubClassOf( ) # Class: (Mycoplasma genitalium metabolite) -AnnotationAssertion( "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium.") +AnnotationAssertion( "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium.") AnnotationAssertion(rdfs:label "Mycoplasma genitalium metabolite") SubClassOf( ) @@ -9932,23 +10005,23 @@ AnnotationAssertion( "hyaluronate") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (5beta steroid) -AnnotationAssertion( "Any steroid that has beta-configuration at position 5.") +AnnotationAssertion( "Any steroid that has β-configuration at position 5.") AnnotationAssertion(rdfs:label "5beta steroid") SubClassOf( ) # Class: (inorganic acid) -AnnotationAssertion( "A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water.") +AnnotationAssertion( "A Brønsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water.") AnnotationAssertion(rdfs:label "inorganic acid") SubClassOf( ) # Class: (bile acids) -AnnotationAssertion( "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5alpha-configuration.") +AnnotationAssertion( "Any member of a group of hydroxy steroids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration, while in lower vertebrates, some bile acids, known as allo-bile acids, have 5α-configuration.") AnnotationAssertion(rdfs:label "bile acids") SubClassOf( ) SubClassOf( ) @@ -9956,7 +10029,7 @@ SubClassOf( (gas molecular entity) -AnnotationAssertion( "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa).") +AnnotationAssertion( "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0°C and 100 kPa).") AnnotationAssertion(rdfs:label "gas molecular entity") SubClassOf( ) @@ -9964,18 +10037,18 @@ SubClassOf( "carbamate") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (fatty acid 4:0) AnnotationAssertion( "Any saturated fatty acid containing 4 carbons.") AnnotationAssertion(rdfs:label "fatty acid 4:0") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (24G7 epitope) -AnnotationAssertion( "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22.") +AnnotationAssertion( "An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXα, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22.") AnnotationAssertion(rdfs:label "24G7 epitope") SubClassOf( ) SubClassOf( ) @@ -9983,13 +10056,13 @@ SubClassOf( ObjectSomeValuesFrom( (glutamate(1-)) -AnnotationAssertion( "An alpha-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group") +AnnotationAssertion( "An α-amino-acid anion that is the conjugate base of glutamic acid, having anionic carboxy groups and a cationic amino group") AnnotationAssertion(rdfs:label "glutamate(1-)") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (acceptor) @@ -10020,7 +10093,16 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (hydron) + +AnnotationAssertion( "The general name for the hydrogen nucleus, to be used without regard to the hydrogen nuclear mass (either for hydrogen in its natural abundance or where it is not desired to distinguish between the isotopes).") +AnnotationAssertion(rdfs:label "hydron") +SubClassOf( ) +SubClassOf( ) +SubClassOf( ) +SubClassOf( ) # Class: (dioxygen) @@ -10037,21 +10119,21 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (aldose) -AnnotationAssertion( "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals.") +AnnotationAssertion( "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n ≥ 2) and their intramolecular hemiacetals.") AnnotationAssertion(rdfs:label "aldose") SubClassOf( ) # Class: (L-alpha-amino acid) -AnnotationAssertion( "Any alpha-amino acid having L-configuration at the alpha-carbon.") +AnnotationAssertion( "Any α-amino acid having L-configuration at the α-carbon.") AnnotationAssertion(rdfs:label "L-alpha-amino acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (polypeptide) @@ -10062,14 +10144,14 @@ SubClassOf( (D-glutamic acid) -AnnotationAssertion( "An optically active form of glutamic acid having D-configuration.") +AnnotationAssertion( "An optically active form of glutamic acid having D-configuration.") AnnotationAssertion(rdfs:label "D-glutamic acid") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (polynucleotide) @@ -10081,7 +10163,7 @@ SubClassOf( ObjectSomeValuesFrom( (L-glutamic acid) -AnnotationAssertion( "An optically active form of glutamic acid having L-configuration.") +AnnotationAssertion( "An optically active form of glutamic acid having L-configuration.") AnnotationAssertion(rdfs:label "L-glutamic acid") SubClassOf( ) SubClassOf( ) @@ -10091,8 +10173,8 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ammonia) @@ -10109,8 +10191,8 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (sulfate) @@ -10123,17 +10205,17 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (hyaluronic acid) -AnnotationAssertion( "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells.") +AnnotationAssertion( "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells.") AnnotationAssertion(rdfs:label "hyaluronic acid") SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (protein polypeptide chain) @@ -10144,36 +10226,37 @@ SubClassOf( ObjectSomeValuesFrom( (carbohydrate) -AnnotationAssertion( "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates.") +AnnotationAssertion( "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates.") AnnotationAssertion(rdfs:label "carbohydrate") SubClassOf( ) # Class: (peptide) -AnnotationAssertion( "Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc.") +AnnotationAssertion( "Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from α-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc.") AnnotationAssertion(rdfs:label "peptide") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (noradrenaline(1+)) +AnnotationAssertion( "An organic cation that is the conjugate acid of noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3.") AnnotationAssertion(rdfs:label "noradrenaline(1+)") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-alpha-amino acid) AnnotationAssertion(rdfs:label "D-alpha-amino acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (glycan) -AnnotationAssertion( "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001.") +AnnotationAssertion( "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001.") AnnotationAssertion(rdfs:label "glycan") SubClassOf( ) @@ -10188,11 +10271,11 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (gamma-aminobutyric acid) -AnnotationAssertion( "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4.") +AnnotationAssertion( "A γ-amino acid that is butanoic acid with the amino substituent located at C-4.") AnnotationAssertion(rdfs:label "gamma-aminobutyric acid") SubClassOf( ) SubClassOf( ) @@ -10200,9 +10283,9 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (bilirubin IXalpha) @@ -10214,11 +10297,11 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ketone) -AnnotationAssertion( "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H).") +AnnotationAssertion( "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H).") AnnotationAssertion(rdfs:label "ketone") SubClassOf( ) @@ -10254,19 +10337,19 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-aldohexose) -AnnotationAssertion( "Any D-aldose having a chain of six carbon atoms in the molecule.") +AnnotationAssertion( "Any D-aldose having a chain of six carbon atoms in the molecule.") AnnotationAssertion(rdfs:label "D-aldohexose") SubClassOf( ) SubClassOf( ) # Class: (D-glucose) -AnnotationAssertion( "A glucose with D-configuration.") +AnnotationAssertion( "A glucose with D-configuration.") AnnotationAssertion(rdfs:label "D-glucose") SubClassOf( ) SubClassOf( ) @@ -10292,7 +10375,7 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (lipid) @@ -10322,13 +10405,13 @@ SubClassOf( (glutamic acid) -AnnotationAssertion( "An alpha-amino acid that is glutaric acid bearing a single amino substituent at position 2.") +AnnotationAssertion( "An α-amino acid that is glutaric acid bearing a single amino substituent at position 2.") AnnotationAssertion(rdfs:label "glutamic acid") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (nucleobase) @@ -10338,7 +10421,7 @@ SubClassOf( ((R)-noradrenaline) -AnnotationAssertion( "The R-enantiomer of noradrenaline.") +AnnotationAssertion( "The R-enantiomer of noradrenaline.") AnnotationAssertion(rdfs:label "(R)-noradrenaline") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -10346,8 +10429,8 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (5beta-cholane) @@ -10356,7 +10439,7 @@ SubClassOf( (acyl group) -AnnotationAssertion( "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids.") +AnnotationAssertion( "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l ≠ 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids.") AnnotationAssertion(rdfs:label "acyl group") SubClassOf( ) @@ -10395,7 +10478,7 @@ SubClassOf( (base) -AnnotationAssertion( "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base).") +AnnotationAssertion( "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Brønsted base) or with the vacant orbital of some other molecular entity (Lewis base).") AnnotationAssertion(rdfs:label "base") SubClassOf( ) @@ -10408,7 +10491,7 @@ SubClassOf( (NMR chemical shift reference compound) -AnnotationAssertion( "Any compound that produces a peak used as reference frequency in the delta chemical shift scale.") +AnnotationAssertion( "Any compound that produces a peak used as reference frequency in the δ chemical shift scale.") AnnotationAssertion(rdfs:label "NMR chemical shift reference compound") SubClassOf( ) SubClassOf( ) @@ -10425,7 +10508,7 @@ SubClassOf( "The univalent carboacyl group formed by loss of -OH from the carboxy group of carbamic acid.") AnnotationAssertion(rdfs:label "carbamoyl group") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbonyl group) @@ -10444,6 +10527,14 @@ AnnotationAssertion( "molecular entity") SubClassOf( ) +# Class: ((S)-noradrenaline(1+)) + +AnnotationAssertion( "An organic cation that is the conjugate acid of (S)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3.") +AnnotationAssertion(rdfs:label "(S)-noradrenaline(1+)") +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (cyclic peptide) AnnotationAssertion(rdfs:label "cyclic peptide") @@ -10470,14 +10561,14 @@ SubClassOf( (glutamine family amino acid) -AnnotationAssertion( "An L-alpha-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class.") +AnnotationAssertion( "An L-α-amino acid which is L-glutamic acid or any of the essential amino acids biosynthesised from it (glutamine, proline and arginine). A closed class.") AnnotationAssertion(rdfs:label "glutamine family amino acid") SubClassOf( ) SubClassOf( ) # Class: (EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor) -AnnotationAssertion( "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2).") +AnnotationAssertion( "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of glutamate—ammonia ligase (EC 6.3.1.2).") AnnotationAssertion(rdfs:label "EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor") SubClassOf( ) @@ -10525,9 +10616,17 @@ AnnotationAssertion(rdfs:label "hor SubClassOf( ) SubClassOf( ) +# Class: (proton) + +AnnotationAssertion( "Nuclear particle of charge number +1, spin 1/2 and rest mass of 1.007276470(12) u.") +AnnotationAssertion( "Nuclear particle of charge number +1, spin ½ and rest mass of 1.007276470(12) u.") +AnnotationAssertion(rdfs:label "proton") +SubClassOf( ) +SubClassOf( ) + # Class: (hydroxides) -AnnotationAssertion( "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-)).") +AnnotationAssertion( "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH).") AnnotationAssertion(rdfs:label "hydroxides") SubClassOf( ) SubClassOf( ) @@ -10536,11 +10635,11 @@ SubClassOf( ObjectSomeValuesFrom( (hydroxy-5beta-cholanic acid) -AnnotationAssertion( "Any member of the class of 5beta-cholanic acids carrying at least one hydroxy group at unspecified position.") +AnnotationAssertion( "Any member of the class of 5β-cholanic acids carrying at least one hydroxy group at unspecified position.") AnnotationAssertion(rdfs:label "hydroxy-5beta-cholanic acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (indoles) @@ -10631,7 +10730,7 @@ SubClassOf( (monoamine molecular messenger) -AnnotationAssertion( "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan.") +AnnotationAssertion( "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (‒CH2‒CH2‒). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan.") AnnotationAssertion(rdfs:label "monoamine molecular messenger") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -10641,7 +10740,7 @@ SubClassOf( ObjectSomeValuesFrom( "An oxoacid containing a single carboxy group.") AnnotationAssertion(rdfs:label "monocarboxylic acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (monoatomic monocation) @@ -10692,7 +10791,7 @@ SubClassOf( "Compounds of the general formula SO3HOR where R is an organyl group") AnnotationAssertion(rdfs:label "organic sulfate") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (oxide) @@ -10727,7 +10826,7 @@ SubClassOf( ObjectSomeValuesFrom( "Any amino acid whose side chain is capable of forming one or more hydrogen bonds.") AnnotationAssertion(rdfs:label "polar amino acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (saturated fatty acid) @@ -10737,10 +10836,10 @@ SubClassOf( (short-chain fatty acid) -AnnotationAssertion( "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid.") +AnnotationAssertion( "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid.") AnnotationAssertion(rdfs:label "short-chain fatty acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (sodium atom) @@ -10805,7 +10904,7 @@ AnnotationAssertion( "sulfuric acid") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (tetrapyrrole) @@ -10854,7 +10953,7 @@ SubClassOf( ObjectSomeValuesFrom( (glycogen) -AnnotationAssertion( "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages. A small number of alpha(1->3) glycosidic linkages and some cumulative alpha(1->6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues.") +AnnotationAssertion( "A polydisperse, highly branched glucan composed of chains of D-glucopyranose residues in α(1→4) glycosidic linkage, joined together by α(1→6) glycosidic linkages. A small number of α(1→3) glycosidic linkages and some cumulative α(1→6) links also may occur. The branches in glycogen typically contain 8 to 12 glucose residues.") AnnotationAssertion(rdfs:label "glycogen") SubClassOf( ) SubClassOf( ) @@ -10869,7 +10968,7 @@ SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (serotonin) @@ -10883,8 +10982,8 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (fatty acid anion) @@ -10892,7 +10991,7 @@ AnnotationAssertion( "fatty acid anion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ammonium) @@ -10906,7 +11005,7 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (dicarboxylic acid dianion) @@ -10921,7 +11020,7 @@ AnnotationAssertion(rdfs:label "car SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carboxylic acid anion) @@ -10929,7 +11028,7 @@ AnnotationAssertion( "carboxylic acid anion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (sodium(1+)) @@ -10948,8 +11047,8 @@ SubClassOf( ObjectSomeValuesFrom( "azanide") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (hydridonitrate(2-)) @@ -10957,59 +11056,59 @@ AnnotationAssertion( "hydridonitrate(2-)") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (hydridodioxygen(1+)) AnnotationAssertion(rdfs:label "hydridodioxygen(1+)") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (L-glutamate(1-)) -AnnotationAssertion( "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group") +AnnotationAssertion( "An α-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group") AnnotationAssertion(rdfs:label "L-glutamate(1-)") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-glutamate(1-)) -AnnotationAssertion( "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group") +AnnotationAssertion( "An α-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group") AnnotationAssertion(rdfs:label "D-glutamate(1-)") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (glutamate(2-)) -AnnotationAssertion( "A dicarboxylic acid dianion that is the conjugate base of glutamate(1-).") +AnnotationAssertion( "A dicarboxylic acid dianion that is the conjugate base of glutamate(1−).") AnnotationAssertion(rdfs:label "glutamate(2-)") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (L-glutamate(2-)) -AnnotationAssertion( "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid.") +AnnotationAssertion( "An L-α-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid.") AnnotationAssertion(rdfs:label "L-glutamate(2-)") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-glutamate(2-)) AnnotationAssertion(rdfs:label "D-glutamate(2-)") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (acetate) @@ -11019,23 +11118,23 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (photon) -AnnotationAssertion( "Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force.") +AnnotationAssertion( "Particle of zero charge, zero rest mass, spin quantum number 1, energy hν and momentum hν/c (h is the Planck constant, ν the frequency of radiation and c the speed of light), carrier of electromagnetic force.") AnnotationAssertion(rdfs:label "photon") SubClassOf( ) # Class: (gamma-aminobutyrate) -AnnotationAssertion( "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid.") +AnnotationAssertion( "An γ-amino acid anion resulting from the deprotonation of the carboxy group of γ-aminobutyric acid.") AnnotationAssertion(rdfs:label "gamma-aminobutyrate") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (butyric acid) @@ -11045,11 +11144,11 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (bile acid) -AnnotationAssertion( "Any member of a group of hydroxy-5beta-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5beta-configuration.") +AnnotationAssertion( "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration.") AnnotationAssertion(rdfs:label "bile acid") SubClassOf( ) SubClassOf( ) @@ -11062,7 +11161,7 @@ SubClassOf( (amide) -AnnotationAssertion( "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group.") +AnnotationAssertion( "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group.") AnnotationAssertion(rdfs:label "amide") SubClassOf( ) @@ -11088,7 +11187,7 @@ SubClassOf( "oxoacid derivative") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (inorganic hydride) @@ -11114,8 +11213,8 @@ SubClassOf( "Any substituent group or skeleton containing carbon.") AnnotationAssertion(rdfs:label "organic group") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (organyl group) @@ -11131,11 +11230,18 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (monoatomic hydrogen) + +AnnotationAssertion(rdfs:label "monoatomic hydrogen") +SubClassOf( ) +SubClassOf( ) + # Class: (atomic nucleus) AnnotationAssertion( "A nucleus is the positively charged central portion of an atom, excluding the orbital electrons.") AnnotationAssertion(rdfs:label "atomic nucleus") SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (nucleon) @@ -11147,7 +11253,7 @@ SubClassOf( (primary amide) -AnnotationAssertion( "A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group.") +AnnotationAssertion( "A derivative of an oxoacid RkE(=O)l(OH)m (l ≠ 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group.") AnnotationAssertion(rdfs:label "primary amide") SubClassOf( ) @@ -11157,6 +11263,13 @@ AnnotationAssertion( "elemental molecular entity") SubClassOf( ) +# Class: (elemental hydrogen) + +AnnotationAssertion(rdfs:label "elemental hydrogen") +SubClassOf( ) +SubClassOf( ) +SubClassOf( ) + # Class: (elemental oxygen) AnnotationAssertion(rdfs:label "elemental oxygen") @@ -11239,7 +11352,7 @@ SubClassOf( (carboxylic ester) -AnnotationAssertion( "An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl.") +AnnotationAssertion( "An ester of a carboxylic acid, R1C(=O)OR2, where R1 = H or organyl and R2 = organyl.") AnnotationAssertion(rdfs:label "carboxylic ester") SubClassOf( ) SubClassOf( ) @@ -11292,10 +11405,10 @@ SubClassOf( (alpha-amino-acid anion) -AnnotationAssertion( "An amino-acid anion obtained by deprotonation of any alpha-amino acid.") +AnnotationAssertion( "An amino-acid anion obtained by deprotonation of any α-amino acid.") AnnotationAssertion(rdfs:label "alpha-amino-acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (s-block element atom) @@ -11310,7 +11423,7 @@ SubClassOf( (catechols) -AnnotationAssertion( "Any compound containing an o-diphenol component.") +AnnotationAssertion( "Any compound containing an o-diphenol component.") AnnotationAssertion(rdfs:label "catechols") SubClassOf( ) @@ -11327,7 +11440,7 @@ AnnotationAssertion( "noradrenaline") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (benzenediols) @@ -11336,20 +11449,21 @@ SubClassOf( ((S)-noradrenaline) -AnnotationAssertion( "The S-enantiomer of noradrenaline.") +AnnotationAssertion( "The S-enantiomer of noradrenaline.") AnnotationAssertion(rdfs:label "(S)-noradrenaline") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carboxylic acid) -AnnotationAssertion( "A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid.") +AnnotationAssertion( "A carbon oxoacid acid carrying at least one ‒C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid.") AnnotationAssertion(rdfs:label "carboxylic acid") SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (main group molecular entity) @@ -11389,7 +11503,7 @@ SubClassOf( (aromatic compound) -AnnotationAssertion( "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character.") +AnnotationAssertion( "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekulé structure) is said to possess aromatic character.") AnnotationAssertion(rdfs:label "aromatic compound") SubClassOf( ) @@ -11453,7 +11567,7 @@ SubClassOf( (nucleic acid) -AnnotationAssertion( "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid.") +AnnotationAssertion( "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid.") AnnotationAssertion(rdfs:label "nucleic acid") SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -11484,32 +11598,32 @@ SubClassOf( "amino-acid cation") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (alpha-amino acid) -AnnotationAssertion( "An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group.") +AnnotationAssertion( "An amino acid in which the amino group is located on the carbon atom at the position α to the carboxy group.") AnnotationAssertion(rdfs:label "alpha-amino acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (gamma-amino acid) -AnnotationAssertion( "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group.") +AnnotationAssertion( "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position γ to the carboxy group.") AnnotationAssertion(rdfs:label "gamma-amino acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (amino-acid residue) AnnotationAssertion( "When two or more amino acids combine to form a peptide, the elements of water are removed, and what remains of each amino acid is called an amino-acid residue.") AnnotationAssertion(rdfs:label "amino-acid residue") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (amino acid) @@ -11517,34 +11631,34 @@ AnnotationAssertion( "amino acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (alpha-amino-acid residue) -AnnotationAssertion( "An amino-acid residue derived from an alpha-amino acid.") +AnnotationAssertion( "An amino-acid residue derived from an α-amino acid.") AnnotationAssertion(rdfs:label "alpha-amino-acid residue") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (alpha-amino-acid cation) AnnotationAssertion(rdfs:label "alpha-amino-acid cation") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbohydrate acid) AnnotationAssertion(rdfs:label "carbohydrate acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbohydrate acid anion) AnnotationAssertion(rdfs:label "carbohydrate acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (canonical nucleoside residue) @@ -11572,7 +11686,7 @@ SubClassOf( (heteroarene) -AnnotationAssertion( "A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2).") +AnnotationAssertion( "A heterocyclic compound formally derived from an arene by replacement of one or more methine (‒C=) and/or vinylene (‒CH=CH‒) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous π-electron system characteristic of aromatic systems and a number of out-of-plane π-electrons corresponding to the Hückel rule (4n+2).") AnnotationAssertion(rdfs:label "heteroarene") SubClassOf( ) SubClassOf( ) @@ -11622,7 +11736,7 @@ AnnotationAssertion(rdfs:label "se SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (nitrogen hydride) @@ -11632,7 +11746,7 @@ SubClassOf( (azane) -AnnotationAssertion( "Saturated acyclic nitrogen hydrides having the general formula NnHn+2.") +AnnotationAssertion( "Saturated acyclic nitrogen hydrides having the general formula NnHn+2.") AnnotationAssertion(rdfs:label "azane") SubClassOf( ) @@ -11656,19 +11770,19 @@ SubClassOf( (quaternary ammonium ion) -AnnotationAssertion( "A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups.") +AnnotationAssertion( "A derivative of ammonium, NH4+, in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups.") AnnotationAssertion(rdfs:label "quaternary ammonium ion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ammonium ion derivative) -AnnotationAssertion( "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc).") +AnnotationAssertion( "A derivative of ammonium, NH4+, in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc).") AnnotationAssertion(rdfs:label "ammonium ion derivative") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (acylcholine) @@ -11678,7 +11792,7 @@ SubClassOf( (steroid) -AnnotationAssertion( "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene.") +AnnotationAssertion( "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene.") AnnotationAssertion(rdfs:label "steroid") SubClassOf( ) SubClassOf( ) @@ -11702,11 +11816,11 @@ AnnotationAssertion( "fatty acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (monosaccharide) -AnnotationAssertion( "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group.") +AnnotationAssertion( "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H‒[CHOH]n‒C(=O)[CHOH]m‒H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group.") AnnotationAssertion(rdfs:label "monosaccharide") SubClassOf( ) @@ -11760,14 +11874,14 @@ SubClassOf( (alpha-adrenergic agonist) -AnnotationAssertion( "An agent that selectively binds to and activates alpha-adrenergic receptors.") +AnnotationAssertion( "An agent that selectively binds to and activates α-adrenergic receptors.") AnnotationAssertion(rdfs:label "alpha-adrenergic agonist") SubClassOf( ) SubClassOf( ) # Class: (carbon oxoanion) -AnnotationAssertion( "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOy(n-) for some integers x, y and n.") +AnnotationAssertion( "A negative ion consisting solely of carbon and oxygen atoms, and therefore having the general formula CxOyn for some integers x, y and n.") AnnotationAssertion(rdfs:label "carbon oxoanion") SubClassOf( ) SubClassOf( ) @@ -11791,17 +11905,17 @@ AnnotationAssertion( "dicarboxylic acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (dicarboxylic acid anion) AnnotationAssertion(rdfs:label "dicarboxylic acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ester) -AnnotationAssertion( "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter.") +AnnotationAssertion( "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter.") AnnotationAssertion(rdfs:label "ester") SubClassOf( ) @@ -11823,7 +11937,7 @@ SubClassOf( "A carboxylic acid anion formed when the carboxy group of a monocarboxylic acid is deprotonated.") AnnotationAssertion(rdfs:label "monocarboxylic acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (pnictogen hydride) @@ -11842,7 +11956,7 @@ SubClassOf( "cholanoid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (protein) @@ -11871,11 +11985,11 @@ SubClassOf( (5beta-cholanic acids) -AnnotationAssertion( "Members of the class of cholanic acids based on a 5beta-cholane skeleton.") +AnnotationAssertion( "Members of the class of cholanic acids based on a 5β-cholane skeleton.") AnnotationAssertion(rdfs:label "5beta-cholanic acids") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (bile acid salt) @@ -11892,14 +12006,14 @@ SubClassOf( (lepton) -AnnotationAssertion( "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin).") +AnnotationAssertion( "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek λεπτοσ (small, thin).") AnnotationAssertion(rdfs:label "lepton") SubClassOf( ) SubClassOf( ) # Class: (baryon) -AnnotationAssertion( "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy).") +AnnotationAssertion( "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek βαρυσ (heavy).") AnnotationAssertion(rdfs:label "baryon") SubClassOf( ) SubClassOf( ) @@ -11920,6 +12034,8 @@ SubClassOf( "A particle smaller than an atom.") AnnotationAssertion(rdfs:label "subatomic particle") +SubClassOf( ) +DisjointClasses( ) # Class: (composite particle) @@ -12022,7 +12138,7 @@ SubClassOf( "amino-acid anion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (glucan) @@ -12059,7 +12175,7 @@ SubClassOf( (acid) -AnnotationAssertion( "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid).") +AnnotationAssertion( "An acid is a molecular entity capable of donating a hydron (Brønsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid).") AnnotationAssertion(rdfs:label "acid") SubClassOf( ) @@ -12071,7 +12187,7 @@ SubClassOf( (carboxamide) -AnnotationAssertion( "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom.") +AnnotationAssertion( "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the ‒C(=O)NH2 group including its carbon atom.") AnnotationAssertion(rdfs:label "carboxamide") SubClassOf( ) SubClassOf( ) @@ -12087,14 +12203,14 @@ SubClassOf( "sulfuric acid derivative") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carboacyl group) AnnotationAssertion( "A carboacyl group is a group formed by loss of at least one OH from the carboxy group of a carboxylic acid.") AnnotationAssertion(rdfs:label "carboacyl group") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (adrenergic agonist) @@ -12176,14 +12292,14 @@ SubClassOf( ObjectSomeValuesFrom( (Bronsted acid) -AnnotationAssertion( "A molecular entity capable of donating a hydron to an acceptor (Bronsted base).") +AnnotationAssertion( "A molecular entity capable of donating a hydron to an acceptor (Brønsted base).") AnnotationAssertion(rdfs:label "Bronsted acid") SubClassOf( ) SubClassOf( ) # Class: (Bronsted base) -AnnotationAssertion( "A molecular entity capable of accepting a hydron from a donor (Bronsted acid).") +AnnotationAssertion( "A molecular entity capable of accepting a hydron from a donor (Brønsted acid).") AnnotationAssertion(rdfs:label "Bronsted base") SubClassOf( ) SubClassOf( ) @@ -12201,17 +12317,17 @@ AnnotationAssertion( "straight-chain saturated fatty acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbonate) AnnotationAssertion(rdfs:label "carbonate") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-glucopyranose) -AnnotationAssertion( "A glucopyranose having D-configuration.") +AnnotationAssertion( "A glucopyranose having D-configuration.") AnnotationAssertion(rdfs:label "D-glucopyranose") SubClassOf( ) SubClassOf( ) @@ -12222,7 +12338,7 @@ SubClassOf( ObjectSomeValuesFrom( (D-hexose) -AnnotationAssertion( "A hexose that has D-configuration at position 5.") +AnnotationAssertion( "A hexose that has D-configuration at position 5.") AnnotationAssertion(rdfs:label "D-hexose") SubClassOf( ) @@ -12235,8 +12351,8 @@ SubClassOf( "hydrogensulfate") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (oxo group) @@ -12260,7 +12376,7 @@ SubClassOf( "Any carboxylic ester where the carboxylic acid component is acetic acid.") AnnotationAssertion(rdfs:label "acetate ester") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (steroid acid) @@ -12268,7 +12384,7 @@ AnnotationAssertion( "steroid acid") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (sulfur oxide) @@ -12291,7 +12407,7 @@ SubClassOf( (alpha-adrenergic drug) -AnnotationAssertion( "Any drug that acts on an alpha-adrenergic receptor.") +AnnotationAssertion( "Any drug that acts on an α-adrenergic receptor.") AnnotationAssertion(rdfs:label "alpha-adrenergic drug") SubClassOf( ) @@ -12317,14 +12433,14 @@ AnnotationAssertion(rdfs:label "org SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (steroid acid anion) AnnotationAssertion( "Any anion formed by loss of a proton from a steroid acid.") AnnotationAssertion(rdfs:label "steroid acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (canonical nucleotide residue) @@ -12404,7 +12520,7 @@ SubClassOf( "A compound formally derived from ammonia by replacing one hydrogen atom by an organyl group.") AnnotationAssertion(rdfs:label "primary amino compound") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (chemical role) @@ -12466,6 +12582,7 @@ SubClassOf( (physiological role) +AnnotationAssertion( "A biological role relating to the normal mechanisms and their interactions within a living system.") AnnotationAssertion(rdfs:label "physiological role") SubClassOf( ) @@ -12520,7 +12637,7 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (bilirubin(2-)) @@ -12530,25 +12647,25 @@ SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (cationic amino-acid residue) AnnotationAssertion( "An amino-acid residue protonated on nitrogen.") AnnotationAssertion(rdfs:label "cationic amino-acid residue") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (short-chain fatty acid anion) -AnnotationAssertion( "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6).") +AnnotationAssertion( "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6).") AnnotationAssertion(rdfs:label "short-chain fatty acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (saturated fatty acid anion) -AnnotationAssertion( "Any fatty acid anion in which there is no C-C unsaturation.") +AnnotationAssertion( "Any fatty acid anion in which there is no C‒C unsaturation.") AnnotationAssertion(rdfs:label "saturated fatty acid anion") SubClassOf( ) @@ -12557,30 +12674,30 @@ SubClassOf( "Any saturated fatty acid anion lacking a carbon side-chain.") AnnotationAssertion(rdfs:label "straight-chain saturated fatty acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (organosulfate oxoanion) -AnnotationAssertion( "An organic anion of general formula RS(=O)2O(-) where R is an organyl group.") +AnnotationAssertion( "An organic anion of general formula RS(=O)2O(−) where R is an organyl group.") AnnotationAssertion(rdfs:label "organosulfate oxoanion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (straight-chain fatty acid) AnnotationAssertion( "Any fatty acid whose skeletal carbon atoms form an unbranched open chain.") AnnotationAssertion(rdfs:label "straight-chain fatty acid") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (straight-chain fatty acid anion) AnnotationAssertion( "A fatty acid anion formed by deprotonation of the carboxylic acid functional group of a straight-chain fatty acid.") AnnotationAssertion(rdfs:label "straight-chain fatty acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (linear tetrapyrrole anion) @@ -12597,31 +12714,31 @@ SubClassOf( (L-alpha-amino acid anion) -AnnotationAssertion( "Conjugate base of an L-alpha-amino acid arising from deprotonation of the C-1 carboxy group.") +AnnotationAssertion( "Conjugate base of an L-α-amino acid arising from deprotonation of the C-1 carboxy group.") AnnotationAssertion(rdfs:label "L-alpha-amino acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (L-alpha-amino acid zwitterion) -AnnotationAssertion( "Zwitterionic form of an L-alpha-amino acid having an anionic carboxy group and a protonated amino group.") +AnnotationAssertion( "Zwitterionic form of an L-α-amino acid having an anionic carboxy group and a protonated amino group.") AnnotationAssertion(rdfs:label "L-alpha-amino acid zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-alpha-amino acid zwitterion) -AnnotationAssertion( "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group.") +AnnotationAssertion( "Zwitterionic form of a D-α-amino acid having an anionic carboxy group and a protonated amino group.") AnnotationAssertion(rdfs:label "D-alpha-amino acid zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (gamma-aminobutyric acid zwitterion) -AnnotationAssertion( "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group.") +AnnotationAssertion( "Zwitterionic form of γ-aminobutyric acid having an anionic carboxy group and a protonated amino group.") AnnotationAssertion(rdfs:label "gamma-aminobutyric acid zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (chemical substance) @@ -12660,14 +12777,14 @@ SubClassOf( "Zwitterionic form of any peptide where, in general, the amino terminus is positively charged and the carboxy terminus is negatively charged.") AnnotationAssertion(rdfs:label "peptide zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (D-alpha-amino acid anion) -AnnotationAssertion( "Any alpha-amino acid anion in which the parent amino acid has D-configuration.") +AnnotationAssertion( "Any α-amino acid anion in which the parent amino acid has D-configuration.") AnnotationAssertion(rdfs:label "D-alpha-amino acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (EC 3.5.1.98 (histone deacetylase) inhibitor) @@ -12681,7 +12798,7 @@ AnnotationAssertion( "nucleobase-containing molecular entity") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (polyanionic polymer) @@ -12695,7 +12812,7 @@ SubClassOf( ObjectSomeValuesFrom( "Zwitterionic form of a polar amino acid having an anionic carboxy group and a protonated amino group.") AnnotationAssertion(rdfs:label "polar amino acid zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (signalling molecule) @@ -12714,15 +12831,15 @@ SubClassOf( "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds.") AnnotationAssertion(rdfs:label "carbohydrate derivative") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbohydrate acid derivative) AnnotationAssertion( "A carbohydrate derivative that is formally obtained from a carbohydrate acid.") AnnotationAssertion(rdfs:label "carbohydrate acid derivative") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (monoamine) @@ -12735,8 +12852,8 @@ SubClassOf( "A carboxylic acid anion resulting from the deprotonation of the carboxy group of a carbohydrate acid derivative.") AnnotationAssertion(rdfs:label "carbohydrate acid derivative anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (food additive) @@ -12766,7 +12883,7 @@ SubClassOf( (one-carbon compound) -AnnotationAssertion( "An organic molecular entity containing a single carbon atom (C1).") +AnnotationAssertion( "An organic molecular entity containing a single carbon atom (C1).") AnnotationAssertion(rdfs:label "one-carbon compound") SubClassOf( ) @@ -12793,21 +12910,21 @@ SubClassOf( "A cationic group that contains carbon.") AnnotationAssertion(rdfs:label "organic cationic group") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (organic anionic group) AnnotationAssertion( "An anionic group that contains carbon.") AnnotationAssertion(rdfs:label "organic anionic group") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (anionic amino-acid residue) AnnotationAssertion( "An amino-acid residue carrying an overall negative charge.") AnnotationAssertion(rdfs:label "anionic amino-acid residue") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (poison) @@ -12822,7 +12939,7 @@ AnnotationAssertion(rdfs:label "pol SubClassOf( ) SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (food preservative) @@ -12843,7 +12960,7 @@ AnnotationAssertion( "primary ammonium ion") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (anti-inflammatory agent) @@ -12853,19 +12970,20 @@ SubClassOf( (gamma-amino acid anion) -AnnotationAssertion( "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group.") +AnnotationAssertion( "An amino-acid anion in which the amino group is situated γ- to the carboxylate group.") AnnotationAssertion(rdfs:label "gamma-amino acid anion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: ((R)-noradrenaline(1+)) -AnnotationAssertion( "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the priamry amino group; major species at pH 7.3.") +AnnotationAssertion( "An organic cation that is the conjugate acid of (R)-noradrenaline, obtained by protonation of the primary amino group; major species at pH 7.3.") AnnotationAssertion(rdfs:label "(R)-noradrenaline(1+)") SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (organic molecule) @@ -12894,7 +13012,7 @@ SubClassOf( (EC 6.3.* (C-N bond-forming ligase) inhibitor) -AnnotationAssertion( "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*).") +AnnotationAssertion( "A ligase inhibitor that interferes with the action of a CN bond-forming ligase (EC 6.3.*.*).") AnnotationAssertion(rdfs:label "EC 6.3.* (C-N bond-forming ligase) inhibitor") SubClassOf( ) @@ -12924,13 +13042,13 @@ SubClassOf( (mouse metabolite) -AnnotationAssertion( "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus).") +AnnotationAssertion( "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus).") AnnotationAssertion(rdfs:label "mouse metabolite") SubClassOf( ) # Class: (Saccharomyces cerevisiae metabolite) -AnnotationAssertion( "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae).") +AnnotationAssertion( "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae ).") AnnotationAssertion(rdfs:label "Saccharomyces cerevisiae metabolite") SubClassOf( ) @@ -12966,7 +13084,7 @@ SubClassOf( (EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor) -AnnotationAssertion( "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*).") +AnnotationAssertion( "An EC 6.3.* (CN bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*).") AnnotationAssertion(rdfs:label "EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor") SubClassOf( ) @@ -12997,13 +13115,13 @@ SubClassOf( (Escherichia coli metabolite) -AnnotationAssertion( "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli.") +AnnotationAssertion( "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli.") AnnotationAssertion(rdfs:label "Escherichia coli metabolite") SubClassOf( ) # Class: (human metabolite) -AnnotationAssertion( "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens).") +AnnotationAssertion( "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens).") AnnotationAssertion(rdfs:label "human metabolite") SubClassOf( ) @@ -13025,7 +13143,7 @@ AnnotationAssertion( "fatty acid anion 4:0") SubClassOf( ) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (food component) @@ -13041,14 +13159,14 @@ SubClassOf( (alpha-amino-acid zwitterion) -AnnotationAssertion( "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3.") +AnnotationAssertion( "An amino acid-zwitterion obtained by transfer of a proton from the carboxy to the amino group of any α-amino acid; major species at pH 7.3.") AnnotationAssertion(rdfs:label "alpha-amino-acid zwitterion") SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (carbohydrates and carbohydrate derivatives) -AnnotationAssertion( "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation.") +AnnotationAssertion( "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation.") AnnotationAssertion(rdfs:label "carbohydrates and carbohydrate derivatives") SubClassOf( ) @@ -13078,19 +13196,19 @@ SubClassOf( (Daphnia magna metabolite) -AnnotationAssertion( "A Daphnia metabolite produced by the species Daphnia magna.") +AnnotationAssertion( "A Daphnia metabolite produced by the species Daphnia magna.") AnnotationAssertion(rdfs:label "Daphnia magna metabolite") SubClassOf( ) # Class: (Daphnia metabolite) -AnnotationAssertion( "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia") +AnnotationAssertion( "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia") AnnotationAssertion(rdfs:label "Daphnia metabolite") SubClassOf( ) # Class: (proteinogenic amino acid) -AnnotationAssertion( "Any of the 23 alpha-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration.") +AnnotationAssertion( "Any of the 23 α-amino acids that are precursors to proteins, and are incorporated into proteins during translation. The group includes the 20 amino acids encoded by the nuclear genes of eukaryotes together with selenocysteine, pyrrolysine, and N-formylmethionine. Apart from glycine, which is non-chiral, all have L configuration.") AnnotationAssertion(rdfs:label "proteinogenic amino acid") SubClassOf( ) @@ -13102,7 +13220,7 @@ SubClassOf( (non-proteinogenic alpha-amino acid) -AnnotationAssertion( "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids.") +AnnotationAssertion( "Any α-amino acid which is not a member of the group of 23 proteinogenic amino acids.") AnnotationAssertion(rdfs:label "non-proteinogenic alpha-amino acid") SubClassOf( ) SubClassOf( ) @@ -13128,6 +13246,7 @@ SubClassOf( ObjectSomeValuesFrom( ) DisjointClasses( ) DisjointClasses( ) +DisjointClasses( ) # Class: (neural crest derived fibroblast) @@ -13723,6 +13842,7 @@ AnnotationAssertion( "chondrocyte") SubClassOf( ) SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -17988,6 +18108,44 @@ EquivalentClasses( ObjectIntersection SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (atom) + +AnnotationAssertion( "A material entity consisting of exactly one atomic nucleus and the electron(s) orbiting it."@en) +AnnotationAssertion(rdfs:label "atom"@en) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +DisjointClasses( ) + +# Class: (molecule) + +AnnotationAssertion( "A material entity that consists of two or more atoms that are all connected via covalent bonds such that any atom can be transitively connected with any other atom."@en) +AnnotationAssertion(rdfs:label "molecule"@en) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (gross anatomical part) + +AnnotationAssertion( "A part of a multicellular organism that is a collection of cell components that are not all contained in one cell."@en) +AnnotationAssertion(rdfs:label "gross anatomical part"@en) +SubClassOf( ) + +# Class: (organism) + +AnnotationAssertion( "A material entity that is a maximal functionally integrated unit that develops from a program encoded in a genome"@en) +AnnotationAssertion(rdfs:label "organism"@en) +SubClassOf( ) + +# Class: (complex of molecules) + +AnnotationAssertion( "A complex of two or more molecules that are not covalently bound."@en) +AnnotationAssertion(rdfs:label "complex of molecules"@en) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (characteristic) + +AnnotationAssertion(rdfs:label "characteristic"@en) + # Class: (vacuole inheritance) AnnotationAssertion(rdfs:label "vacuole inheritance") @@ -21904,6 +22062,7 @@ SubClassOf( ObjectSomeValuesFrom( (molecular_function) AnnotationAssertion( "molecular function") +AnnotationAssertion(rdfs:label "gene product or complex activity"@en) AnnotationAssertion(rdfs:label "molecular_function") SubClassOf( ) DisjointClasses( ) @@ -21975,6 +22134,7 @@ SubClassOf( ObjectSomeValuesFrom( "cell or subcellular entity") AnnotationAssertion( "cellular component") AnnotationAssertion(rdfs:label "cellular_component") +EquivalentClasses( ObjectUnionOf( )) SubClassOf( ) DisjointClasses( ) @@ -24252,8 +24412,10 @@ SubClassOf( ObjectSomeValuesFrom( "biological process") AnnotationAssertion( "physiological process") +AnnotationAssertion(rdfs:label "biological process"@en) AnnotationAssertion(rdfs:label "biological_process") SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (metabolic process) @@ -25245,6 +25407,13 @@ EquivalentClasses( ObjectIntersection SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (regulation of proton transport) + +AnnotationAssertion(rdfs:label "regulation of proton transport") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (formation of animal organ boundary) AnnotationAssertion( "organ boundary specification") @@ -27064,38 +27233,6 @@ DisjointClasses( ObjectSomeValuesFrom DisjointClasses( ObjectSomeValuesFrom( )) DisjointClasses( ObjectSomeValuesFrom( )) -# Class: (response to electrical stimulus involved in regulation of muscle adaptation) - -AnnotationAssertion(rdfs:label "response to electrical stimulus involved in regulation of muscle adaptation") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) - -# Class: (detection of electrical stimulus involved in regulation of muscle adaptation) - -AnnotationAssertion(rdfs:label "detection of electrical stimulus involved in regulation of muscle adaptation") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) -DisjointClasses( ObjectSomeValuesFrom( )) - # Class: (cardiac muscle adaptation) AnnotationAssertion(rdfs:label "cardiac muscle adaptation") @@ -27244,6 +27381,17 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (proton transmembrane transporter activity) + +AnnotationAssertion( "hydrogen ion transmembrane transporter activity") +AnnotationAssertion( "proton transporter activity") +AnnotationAssertion(rdfs:label "proton transmembrane transporter activity") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (sodium ion transmembrane transporter activity) AnnotationAssertion( "sodium transporter activity") @@ -30554,6 +30702,7 @@ AnnotationAssertion(rdfs:label "extr SubClassOf( ) DisjointClasses( ) DisjointClasses( ) +DisjointClasses( ) # Class: (pancreas development) @@ -32176,8 +32325,10 @@ AnnotationAssertion( "macromolecule complex") AnnotationAssertion( "protein containing complex") AnnotationAssertion(rdfs:label "protein-containing complex") +SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +DisjointClasses( ) DisjointClasses( ) # Class: (muscle cell proliferation) @@ -35025,6 +35176,7 @@ SubClassOf( ObjectSomeValuesFrom( "organelle") SubClassOf( ) +DisjointClasses( ) # Class: (membrane-bounded organelle) @@ -35839,6 +35991,16 @@ SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) DisjointClasses( ObjectSomeValuesFrom( )) +# Class: (virion component) + +AnnotationAssertion( "virion part") +AnnotationAssertion(rdfs:label "virion component") +SubClassOf( ) +SubClassOf( ObjectComplementOf(ObjectSomeValuesFrom( ))) +SubClassOf( ObjectSomeValuesFrom( ObjectComplementOf())) +DisjointClasses( ) +DisjointClasses( ObjectSomeValuesFrom( )) + # Class: (motile cilium assembly) AnnotationAssertion(rdfs:label "motile cilium assembly") @@ -40876,12 +41038,6 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (sensory perception of electrical stimulus) - -AnnotationAssertion(rdfs:label "sensory perception of electrical stimulus") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (sensory perception of light stimulus) AnnotationAssertion(rdfs:label "sensory perception of light stimulus") @@ -40896,14 +41052,6 @@ AnnotationAssertion(rdfs:label "sens SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (electroception) - -AnnotationAssertion( "electroception sense") -AnnotationAssertion( "electroceptive sense") -AnnotationAssertion(rdfs:label "electroception") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (detection of light stimulus involved in sensory perception) AnnotationAssertion( "sensory detection of light stimulus") @@ -40920,46 +41068,6 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (detection of electrical stimulus involved in sensory perception) - -AnnotationAssertion( "sensory detection of electrical stimulus") -AnnotationAssertion( "sensory detection of electrical stimulus during sensory perception") -AnnotationAssertion( "sensory perception, sensory detection of electrical stimulus") -AnnotationAssertion( "sensory perception, sensory transduction of electrical stimulus") -AnnotationAssertion( "sensory transduction of electrical stimulus") -AnnotationAssertion( "sensory transduction of electrical stimulus during sensory perception") -AnnotationAssertion(rdfs:label "detection of electrical stimulus involved in sensory perception") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (detection of electrical stimulus involved in electroception) - -AnnotationAssertion( "electroception, detection of electrical stimulus") -AnnotationAssertion( "electroception, sensory detection of electrical stimulus") -AnnotationAssertion( "electroception, sensory transduction") -AnnotationAssertion( "electroception, sensory transduction of electrical stimulus") -AnnotationAssertion(rdfs:label "detection of electrical stimulus involved in electroception") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (detection of electrical stimulus involved in sensory perception of pain) - -AnnotationAssertion( "perception of pain, detection of electrical stimulus") -AnnotationAssertion( "perception of pain, sensory detection of electrical stimulus") -AnnotationAssertion( "perception of pain, sensory transduction of electrical stimulus") -AnnotationAssertion(rdfs:label "detection of electrical stimulus involved in sensory perception of pain") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (detection of chemical stimulus involved in sensory perception of pain) AnnotationAssertion( "perception of pain, detection of chemical stimulus") @@ -40984,12 +41092,6 @@ AnnotationAssertion(rdfs:label "sens SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (detection of electrical stimulus) - -AnnotationAssertion(rdfs:label "detection of electrical stimulus") -SubClassOf( ) -SubClassOf( ) - # Class: (regulation of lipid catabolic process) AnnotationAssertion( "regulation of lipid breakdown") @@ -41831,11 +41933,6 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (response to electrical stimulus) - -AnnotationAssertion(rdfs:label "response to electrical stimulus") -SubClassOf( ) - # Class: (detection of stimulus) AnnotationAssertion( "stimulus detection") @@ -49935,11 +50032,15 @@ DisjointClasses( ObjectSomeValuesFrom # Class: (cellular anatomical structure) +AnnotationAssertion( "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex.") AnnotationAssertion( "cellular anatomical entity") +AnnotationAssertion(rdfs:label "cellular anatomical entity") AnnotationAssertion(rdfs:label "cellular anatomical structure") SubClassOf( ) SubClassOf( ) SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +DisjointClasses( ) # Class: (regulation of glutamatergic neuron differentiation) @@ -49975,6 +50076,18 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (proton export across plasma membrane) + +AnnotationAssertion( "hydrogen ion export across plasma membrane") +AnnotationAssertion(rdfs:label "proton export across plasma membrane") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (plasma membrane bounded cell projection assembly) AnnotationAssertion(rdfs:label "plasma membrane bounded cell projection assembly") @@ -52728,6 +52841,15 @@ EquivalentClasses( ObjectIntersection SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (proton transmembrane transport) + +AnnotationAssertion( "hydrogen ion transmembrane transport") +AnnotationAssertion( "hydrogen transmembrane transport") +AnnotationAssertion(rdfs:label "proton transmembrane transport") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (negative regulation of RNA biosynthetic process) AnnotationAssertion(rdfs:label "negative regulation of RNA biosynthetic process") @@ -58726,11 +58848,13 @@ SubClassOf( ObjectSomeValuesFrom( (data item) +AnnotationAssertion( "An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements."@en) AnnotationAssertion(rdfs:label "data item"@en) SubClassOf( ) # Class: (information content entity) +AnnotationAssertion( "A generically dependent continuant that is about some thing."@en) AnnotationAssertion(rdfs:label "information content entity"@en) # Class: (curation status specification) @@ -58953,7 +59077,9 @@ DisjointClasses( (cellular organisms) +AnnotationAssertion(rdfs:label "cellular organism") AnnotationAssertion(rdfs:label "cellular organisms") +SubClassOf( ) SubClassOf( ) # Class: (Archelosauria) @@ -60219,9 +60345,9 @@ SubClassOf( (protein) +AnnotationAssertion( "An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA, and any derivatives thereof.") AnnotationAssertion(rdfs:label "protein") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -60726,6 +60852,7 @@ SubClassOf( (amino acid chain) +AnnotationAssertion( "An organic amino compound that consists of amino acid residues (unmodified amino-acid residues and/or modified amino-acid residues) linked by peptide bonds or derivatives of such bonds.") AnnotationAssertion(rdfs:label "amino acid chain") SubClassOf( ) SubClassOf( ObjectMinCardinality(2 )) @@ -61487,11 +61614,11 @@ AnnotationAssertion( "system") SubClassOf( ) -# Class: (processual entity) +# Class: (gross anatomical part) -AnnotationAssertion(rdfs:label "processual entity") -SubClassOf( ) -DisjointClasses( ) +AnnotationAssertion(rdfs:label "gross anatomical part") +SubClassOf( ) +DisjointClasses( ) # Class: (chemosensory organ) @@ -61976,14 +62103,14 @@ AnnotationAssertion( "life") AnnotationAssertion( "lifespan") AnnotationAssertion(rdfs:label "life cycle") -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (life cycle stage) AnnotationAssertion(rdfs:label "life cycle stage") -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (zygote stage) @@ -62209,8 +62336,6 @@ SubClassOf( ObjectSomeValuesFrom( SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectExactCardinality(1 )) -SubClassOf( ObjectExactCardinality(1 )) # Class: (respiration organ) @@ -62576,9 +62701,10 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (organism substance) AnnotationAssertion(rdfs:label "organism substance") -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +DisjointClasses( ) # Class: (anatomical space) @@ -62590,6 +62716,7 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (material anatomical entity) AnnotationAssertion(rdfs:label "material anatomical entity") +EquivalentClasses( ObjectUnionOf( )) SubClassOf( ) SubClassOf( ) DisjointClasses( ) @@ -62635,7 +62762,7 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (acellular anatomical structure) AnnotationAssertion(rdfs:label "acellular anatomical structure") -SubClassOf( ) +SubClassOf( ) # Class: (anatomical cluster) @@ -63400,6 +63527,7 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (anatomical entity) AnnotationAssertion(rdfs:label "anatomical entity") +EquivalentClasses( ObjectUnionOf( )) EquivalentClasses( ObjectHasSelf()) SubClassOf( ) @@ -65137,7 +65265,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "laryngeal cartilage") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -65375,7 +65502,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion( "lens capsule") AnnotationAssertion(rdfs:label "capsule of lens") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -66439,7 +66565,6 @@ AnnotationAssertion( "artery smooth muscle tissue") AnnotationAssertion(rdfs:label "artery smooth muscle tissue") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -67820,7 +67945,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "trigeminal nucleus") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) SubClassOf( ) -SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -70810,6 +70934,7 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "anterior limiting lamina of cornea") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -72630,7 +72755,7 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (developing anatomical structure) AnnotationAssertion(rdfs:label "developing anatomical structure") -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (presumptive neural retina) @@ -74785,13 +74910,6 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (pigment epithelium of eye) - -AnnotationAssertion(rdfs:label "pigment epithelium of eye") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (nucleus of medulla oblongata) AnnotationAssertion(rdfs:label "nucleus of medulla oblongata") @@ -75483,7 +75601,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "medial nasal process mesenchyme") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -76414,7 +76531,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "1st arch maxillary mesenchyme from neural crest") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76646,7 +76762,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "maxillary process mesenchyme from neural crest") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76657,7 +76772,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "maxillary process mesenchyme from head mesenchyme") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76668,7 +76782,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "mandibular process mesenchyme from neural crest") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76679,7 +76792,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "mandibular process mesenchyme from head mesenchyme") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76700,7 +76812,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "1st arch mandibular mesenchyme from head mesenchyme") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76710,7 +76821,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "1st arch mesenchyme from head mesenchyme") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -76918,15 +77028,6 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (electroreceptor organ) - -AnnotationAssertion( "electric sense organ") -AnnotationAssertion( "electroreception organ") -AnnotationAssertion(rdfs:label "electroreceptor organ") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - # Class: (replacement element) AnnotationAssertion(rdfs:label "replacement element") @@ -79021,7 +79122,7 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "eye epithelium") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) # Class: (foregut epithelium) @@ -80286,7 +80387,7 @@ SubClassOf( ObjectSomeValuesFrom( # Class: (anatomical surface region) AnnotationAssertion(rdfs:label "anatomical surface region") -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -80411,7 +80512,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "wall of gallbladder") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) @@ -80433,7 +80533,6 @@ SubClassOf( ObjectSomeValuesFrom( AnnotationAssertion(rdfs:label "wall of anal canal") EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) -SubClassOf( ) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -81026,6 +81125,13 @@ EquivalentClasses( ObjectIntersec SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (epithelium of anorectum) + +AnnotationAssertion(rdfs:label "epithelium of anorectum") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + ############################ # Named Individuals