Extended Data Fig. 5: Analysis of B cells and other CD45+ mesenteric cells by single cell RNAseq.
From: Distinct roles for B cell-derived LTα3 and LTα1β2 in TNF-mediated ileitis
a: Graph on the left shows quantification of the number of CD19+ B cells in surgically resected sections of ileal-draining mesentery normalized to the weight of tissue (Control (n = 20), CD non-inflamed (n = 16), CD inflamed (n = 15)). Graph on the right depicts a subset of the data on left to show only CD patients that had matched mesentery draining from non-inflamed ileum and from inflamed ileum, lines connect paired samples from the same patient (n = 13). Gating strategy in Supplementary Fig. 4. Data depict mean ± SEM. Kruskal-Wallis test for graph on left, two-sided paired t test on for the graph on right. b, c: Single cell RNA sequencing (scRNA-seq) of sorted live, CD45+ mesenteric cells from 3 CD patients with matched mesentery draining from inflamed and non-inflamed regions of the ileum. Uniform Manifold Approximation and Projection [UMAP] plot of mesenteric immune cells showing if the cells are derived from inflamed or non-inflamed regions of the mesentery (b) and assigned cell classification of all the different UMAP clusters (c) shown in Fig. 7a. d: Heatmap of genes defining the clusters of CD human mesentery shown in c. e: Heatmap of genes defining the clusters of mouse mLN shown in Fig. 7c–e. f: A correlation scatter plot showing expression of Lta vs Tnf in mouse mLN in B cell cluster 1.
