Fig. 6: Regulation of differentiation in the human intestine.
From: Organization of the human intestine at single-cell resolution
a, UMAP projections depicting the cells in the four primary regions of the intestine (duodenum, jejunum, ileum and colon), labelled by cell type (left) and differentiation pseudotime (right). b,c, Variable peaks (b) and genes (c) identified along the absorptive differentiation trajectories. The rows represent the z-scores of accessibility for each peak or expression for each gene. The columns represent the position in pseudotime from the start to the end for each section of the intestine. Peaks and genes were k-means-clustered and the clusters were labelled on the basis of the dominant time and location where they are most accessible/expressed. d, Integrated gene expression of TFs of which the expression is correlated with ChromVar motif activity along the differentiation trajectory. e, Accessibility at peaks correlated with the expression of ETV6 along the differentiation trajectory in each region (left). Each peak is normalized to the maximum accessibility along any of the trajectories. Right, integrated gene expression of ETV6 along the differentiation trajectory in each region is plotted on the right. Norm., normalized. f, Linkage-disequilibrium score regression to identify the enrichment of GWAS SNPs in cell-type-specific marker peaks. Unadjusted coefficient P values computed from linkage-disequilibrium score regression are plotted in the heat map. Significance is indicated by an asterisk, as determined by a Bonferroni-corrected coefficient P value of <0.05. P values for determining significance were adjusted for the number of cell classes tested.
