Fig. 5: Transcriptomic landscape of colonic lymphocytes in CPI-induced colitis at single-cell resolution.

a UMAP plots of the 17 lymphocyte populations labelled according to Louvain clustering, coloured based on SingleR cell-type assignments and split by the two conditions under consideration. b Dot plot of the key genes used to identify each of the 17 clusters as shown by average expression and percentage expressed in each cluster. c Average proportional changes shown across all clusters in wildtype female 6-week-old mice with CPI-induced colitis (n = 3) vs control wildtype female 6-week-old mice (n = 3). Bar graph showing mean with SEM and Two-way ANOVA with Sidak’s multiple comparison test used whereby ***P = 0.0004 and ****P < 0.0001. d Chair plots showing differentially expressed transcripts ranked by decreasing log fold change and coloured by estimated false discovery rate (FDR) across all CD4⁺ and CD8⁺ T cell clusters in wildtype female 6-week-old mice with CPI-induced colitis (n = 3) vs control wildtype female 6-week-old mice (n = 3). e Pathways, identified using GSEA Hallmark, upregulated in across all CD4⁺ and CD8⁺ T cell clusters in wildtype female 6-week-old mice with CPI-induced colitis (n = 3) vs control wildtype female 6-week-old mice (n = 3). P value adjustment for multiple comparisons was applied with the Benjamini and Hochberg method. f Violin plots showing the expression levels of cytokines across CD4⁺ and CD8⁺ T cell and B cell clusters in wildtype female 6-week-old mice with CPI-induced colitis (n = 3) vs control wildtype female 6-week-old mice (n = 3).