Extended Data Fig. 10: Regulatory TFs in the intestine.
From: Organization of the human intestine at single-cell resolution
a) Hypergeometric p-values of selected TF motifs in differential peaks between colon stem cells and stem cells from other regions of the intestine. Colour represents the log10 adjusted p-value computed with ArchR. b) Violin plots of motif deviation scores for FOXA3 for goblet cells, immature goblet cells, stem cells, and enterocytes in different regions of the intestine. c) Dotplot representation of expression of different transcription factors in goblet cells, immature goblet cells, stem cells, and enterocytes in different regions of the intestine. d) TF motif footprints for POU2F3 in proximal jejunum tuft cells and enterocytes. e) TF motif footprints for ATOH1 in duodenum goblet cells and enterocytes. Error bands in d and e represent the standard deviation. f) Overlap of epithelial regulators identified with the multiome data and separate snRNA and snATAC datasets.(g, h) Heatmap representation of transcription factors whose integrated gene expression was correlated with their motif activity in one region of the intestine for immune (g) and stromal (h) cell types. Row z-scores of ChromVar deviation scores are shown on the left and row z-scores of integrated TF expression are shown on the right. i, j) Overlap of immune (i) and stromal (j) regulators identified with the multiome data and separate snRNA and snATAC datasets. k) Hypergeometric p-values of TF motifs enriched in the clusters of peaks identified in b. l) Enrichment of KEGG pathways in the clusters of genes identified in c. Uncorrected p-values as determined by kegga are plotted. (m–o) Integrated gene expression of MTTP (m) and SCNN1B (n) and LGR5 (o) along the differentiation trajectory. (p) Accessibility at peaks correlated with the expression of TMPRSS15 along the differentiation trajectory in each region is plotted on the left. Each peak is normalized to the maximum accessibility along any of the trajectories. Integrated gene expression of TMPRSS15 along the differentiation trajectory in each region is plotted on the right.
