Extended Data Fig. 7: Single-cell atlas of intestinal CD127⁺ immune cells and EpCAM⁺ epithelial cells.

a, FACS sorting strategy for single-cell RNA sequencing. CD45^-EpCAM⁺ epithelial cells and CD45⁺CD127⁺ immune cells were mixed at 1:1 ratio of Gabbr1^WT and Gabbr1^ΔRorc mice small intestine in the context of 2.5% DSS-induced colitis. b, UMAP plot showing cell clusters annotation of scRNA-seq data as in a. c, Violin plot displaying the mean expression of indicated genes in annotated cell types. d, Heatmap showing scaled marker genes expression of annotated cell types. e, f, Dot plots showing mean expression of indicated genes in annotated cell types grouped by immune cells (e) and epithelial cells (f). g, Gene ontology (GO) functional enrichment analysis of genes downregulated in Gabbr1^ΔRorc enterocytes compared to Gabbr1^WT enterocytes. h, Volcano plot showing differential expressed genes in Gabbr1^ΔRorc DN ILC3s (left) or NKp46⁺ILC3s (right) versus Gabbr1^WT ILC3s of scRNA-seq dataset. Red dots indicate upregulated genes and blue dots represent downregulated genes. FC, fold change. i, Dot plot displaying the expression of Cebpb in Gabbr1^WT and Gabbr1^ΔRorc ILC subsets. j, Motif analysis of calcium-responsive motifs in the Cebpb promoter via JASPAR database (https://jaspar.genereg.net/).