Single-cell Profiling Reveals Diverse γδ T Cell Subsets in Ulcerative Colitis

Mayer SM, Arnold J, et al., Science Immunol. 2026

This repository contains the code used for creating all scRNA-seq and flow cytometry plots in our manuscript. Files needed for the analysis can be downloaded from zenodo. This download link contains both the raw data (count matrices etc.) and the processed R objects (as .Rds files). Raw data can be used to start from step 1 (/1_process_code), R objects can be directly used for step 2 (/2_figures_code).

Overview of Figures

Fig. 1, Fig. 3, Fig.4, Fig. S1, Fig.S3, Fig.S4: 2_figures_code/FLASHseq/

Fig.6, Fig. S6: 2_figures_code/Li21_Smillie19/

Fig. 7: 2_figures_code/Thomas_24/

Fig. 8, Fig. S8: 2_figures_code/PBMC