Extended Data Fig. 9: Integration of snRNA-seq and CODEX datasets.
From: Organization of the human intestine at single-cell resolution
a) Average MET expression for all TA cells from a given donor and average SEMA4D expression for all plasma cells from a given donor. b) PLXNA2, RASA1, and MAP2K5 expression in TA2 cells in large colon (CL) and small bowel (SB) (one-sided Wilcoxon Rank-Sum Test). c) Representative image of a donor’s transverse colon with plasma cells (red), TA cells (blue), and other cell types (grey) highlighted with also a magnified area indicated with rectangle. (left scale bar = 500 µm; right scale bar = 100 µm) d) Example of receptor ligands expressed at higher levels in the colon than the small intestine (SI) for the FN1 by myofibroblast and PLAUR by enterocyte. e) Colocalization quotient (CLQ) for all cell types found within the follicle community. f) Heatmap of differentially expressed genes (from MaxFuse matched snRNA-seq cells) among individual CODEX cells, grouped based on previously determined cellular neighbourhoods from CODEX analysis. g) Gene Ontology Enrichment analysis for cellular neighbourhoods “inner folliclle” and “outer folliclle”, based on the differentially expressed genes shown in f.
