Duke dev rat atlas added

docs/source/blog/duke-dev-rat-atlas-added.md

@@ -0,0 +1,46 @@
+---
+blogpost: true
+date: July 20, 2026
+author: Jung Woo Kim
+location: London, England
+category: brainglobe
+language: English
+---
+
+# The Duke Developmental Rat Brain Atlases have been added to BrainGlobe
+
+The brain continues to develop well after an organism is born. To provide a comprehensive view of the growth of various brain regions in rats, [Calabrese et al. (2013)](https://doi.org/10.1016/j.neuroimage.2013.01.017) of Duke University created a high resolution averaged T2 MRI atlas of postnatal rat brain development using five specimens each at nine different timepoints (P0, P2, P4, P8, P12, P18, P24, P40, P80), with consistent region labelling across all nine atlases. These atlases were aligned to two rat atlases for consistency: the Paxinos and Watson adult rat atlas for the latest four timepoints, and the Ashwell and Paxions neonatal rat atlas for the earliest five timepoints. This gave the authors 26 developmentally distinct regions, allowing them to plot growth curves for the rat brain by measuring their volumes over time. We have packaged the nine atlases which comprise the Duke developmental rat brain atlas to be used within BrainGlobe. 
+
+![duke dev rat brain atlas annotations](./images/duke_dev_rat_brain_atlas.png)
+
+**Figure 1. The nine timepoints of the Duke Developmental Rat Brain Atlas, with right annotations overlaid on references (not to scale).**
+
+The BrainGlobe team re-packaged the data generated and made public by the authors, making it now possible to use the Duke developmental rat brain atlases within the BrainGlobe ecosystem. The atlas names are:
+
+* `duke_dev_rat_p00_25um`
+* `duke_dev_rat_p02_25um`
+* `duke_dev_rat_p04_25um`
+* `duke_dev_rat_p08_25um`
+* `duke_dev_rat_p12_25um`
+* `duke_dev_rat_p18_25um`
+* `duke_dev_rat_p24_25um`
+* `duke_dev_rat_p40_25um`
+* `duke_dev_rat_p80_25um`
+
+## How do I use the new atlases?
+
+You can use the Duke developmental rat brain atlases for visualisation like other BrainGlobe atlases, as written below:
+
+* Install BrainGlobe ([instructions](/documentation/index))
+* Open napari and follow the steps in our [download tutorial](/tutorials/manage-atlases-in-GUI.md) for the Duke Developmental Rat Brain Atlases
+* Visualise the different parts of the atlas as described in our [visualisation tutorial](/tutorials/visualise-atlas-napari)
+
+The end result will look something like Figure 2.
+
+![duke dev p24 rat brain atlas visualised in napari](./images/duke_dev_p24_rat_brain_napari.png)
+
+**Figure 2: The Duke Developmental P24 Rat Brain atlas visualised with `brainrender-napari`: with mesh overlays for the brain (grey) and the septum (green).**
+
+## Why are we adding new atlases?
+
+A fundamental aim of the BrainGlobe project is to make various brain atlases easily accessible by users across the globe. These atlases allow for BrainGlobe users to easily access a developmental rat brain atlas. If you would like to get involved with a similar project, please [get in touch](/contact).

docs/source/documentation/brainglobe-atlasapi/_atlas_table.md

@@ -36,3 +36,4 @@
 | [Allen CCFv2 Mouse Brain Atlas](https://doi.org/10.1038/nature13186) | 25 micron | P56 | Nissl | [![More info](https://img.shields.io/badge/More%20info-Click%20here-blue)](https://brainglobe.info/documentation/brainglobe-atlasapi/usage/atlas-details.html#allen-ccfv2-mouse-brain-atlas) |
 | [Allen CCFv2 Mouse Fiber Tracts Atlas](https://doi.org/10.1038/nature13186) | 25 micron | P56 | Nissl | [![More info](https://img.shields.io/badge/More%20info-Click%20here-blue)](https://brainglobe.info/documentation/brainglobe-atlasapi/usage/atlas-details.html#allen-ccfv2-mouse-fiber-tracts-atlas) |
 | [Allen CCFv2 Developmental Mouse Brain Atlas](https://doi.org/10.1038/nature13186) | 25 micron | P56 | Nissl | [![More info](https://img.shields.io/badge/More%20info-Click%20here-blue)](https://brainglobe.info/documentation/brainglobe-atlasapi/usage/atlas-details.html#allen-ccfv2-developmental-mouse-brain-atlas) |
+| [Duke Developmental Rat Brain Atlas](https://doi.org/10.1016/j.neuroimage.2013.01.017) | 25 micron | P0, P2, P4, P8, P12, P18, P24, P40 and P80 | MRI | [![More info](https://img.shields.io/badge/More%20info-Click%20here-blue)](https://brainglobe.info/documentation/brainglobe-atlasapi/usage/atlas-details.html#duke-dev-rat-atlas) |

docs/source/documentation/brainglobe-atlasapi/usage/atlas-details.md

@@ -467,6 +467,22 @@ The template is resampled from 50μm to 39μm during registration to Waxholm Spa
 This atlas is only available at 39μm resolution (resampled from 50 µm during registration to Waxholm Space):
 * `whs_sd_swc_female_rat_39um`
 
+### [Duke Developmental Rat Brain Atlas](https://doi.org/10.1016/j.neuroimage.2013.01.017)
+These atlases from [Calabrese et al. (2013)](https://doi.org/10.1016/j.neuroimage.2013.01.017) were obtained from 5 specimens each from 9 different time
+points using a 7T MRI. The earliest 5 timepoints were registered to the Ashwell and Paxions neonatal rat atlas and the last 4 timepoints were registered
+to the Paxinos and Watson adult rat atlas to give a consistent view of the structural changes that occur over development. 
+
+These atlases are only available at 25μm resolution:
+* `duke_dev_rat_p00_25um` - P0
+* `duke_dev_rat_p02_25um` - P2
+* `duke_dev_rat_p04_25um` - P4
+* `duke_dev_rat_p08_25um` - P8
+* `duke_dev_rat_p12_25um` - P12
+* `duke_dev_rat_p18_25um` - P18
+* `duke_dev_rat_p24_25um` - P24
+* `duke_dev_rat_p40_25um` - P40
+* `duke_dev_rat_p80_25um` - P80
+
 ## Other rodent
 ### [Prairie vole brain atlas](https://doi.org/10.7554/eLife.87029.3.sa0)
 This is a brain atlas of the Prairie vole (Microtus ochrogaster) from