Extended Data Fig. 5: Gene expression programs in FAS cells. | Nature

Extended Data Fig. 5: Gene expression programs in FAS cells.

From: Spatial fibroblast niches define Crohn’s fistulae

Extended Data Fig. 5: Gene expression programs in FAS cells.The alternative text for this image may have been generated using AI.

Related to Fig. 1. A. Dotplot visualising fibroblast gene marker expression in Xenium ST cohort in FAS-associated fibroblast cell clusters (“Fistula” group) and normal appearing fibroblasts (“Normal”). B. Violin plots visualising selected TFs specific to FAS subtypes in Xenium ST cohort. C. Violin plots visualising selected ECM factors specific to FAS subtypes in Xenium ST cohort. D. Violin plots visualising selected chemokines specific to FAS subtypes in Xenium ST cohort. E. Violin plots visualising selected cytokines specific to FAS subtypes in Xenium ST cohort. F. Violin plots visualising selected morphogens specific to FAS subtypes in Xenium ST cohort. G. Expression of selected genes in fistula tracts in Xenium ST cohort, visualised over ROIs indicated in Fig. 1c (top panel) and Fig. 1d (middle and bottom panel). H. Heatmap visualising macrophage expressed gene variation over distance from fistula luminal edge into deeper tissue fibrotic zones, from left to right. Smooth expression fit from macrophages across all fistulae are shown. I. As in H, except FAS cell expressed genes are shown. J. Density plot visualising macrophage cell subtype distribution over distance from fistula edge. Standard error represents variation across sections and is shown in a lighter colour shade per cell type.

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