Extended Data Fig. 8: Pairing of CODEX multiplexed imaging and snRNA-seq for cell-cell colocalization analysis.
From: Organization of the human intestine at single-cell resolution
a) Expression of B3GAT1 and four CEACAM transcripts plotted on the UMAP manifold of epithelial cells from the duodenum, jejunum, ileum, and colon. b) Dotplot representation of the expression of B3GAT1 and four CEACAM transcripts by different epithelial cell types in different regions of the intestine. c) Large colon (CL) and small bowel (SB) show differences in cell-cell co-localization patterns; annotated cell-pairs are more colocalized in the colon compared to the small bowel (Student’s T test, two-sided, corrected for multiple hypothesis testing with the Benjamini Hochberg procedure). d) SEMA4D ligand expression in plasma cells and MET receptor gene expression in TA2 cells, showing higher expression in colon than small bowel (one-sided Wilcoxon Rank-Sum Test). e) Differences in pairwise cell-type colocalization patterns across tissue locations (n = 3 samples for each ___location).
