Fig. 3: Transcriptional changes in epithelial lung cells after Scgb1a1+ cell depletion. | Nature Communications

Fig. 3: Transcriptional changes in epithelial lung cells after Scgb1a1+ cell depletion.

From: Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung

Fig. 3

scRNA-seq analysis was done using lung epithelial cells from SRC mice harvested on day 0 (n = 2 mice), day 2 (n = 7 mice), day 3 (n = 5 mice), and day 4 (n = 5). a Scheme of cell sorting and scRNA-seq strategy. Created with BioRender.com. b UMAP embedding showing epithelial cell type (upper panels) and dividing and non-dividing epithelial cells (lower panels) on the indicated days. c Gene set enrichment analysis (GSEA) of upregulated genes in club cells on day 2, 3, and 4 compared to day 0 (MAST test, FC > 2, p_adj <0.05). The terms mentioned in the text are shown in bold. d Heatmap of genes from the”leukocyte chemotaxis” cluster of the GSEA in c showing the expression in club cells. e GSEA of upregulated genes in ciliated cells on day 2, 3, and 4 compared to day 0 (MAST test, FC > 2, p_adj < 0.05). The terms mentioned in the text are shown in bold. f Heatmap of genes from the”response to virus” cluster of the GSEA in e showing the expression in ciliated cells. g UMAP embedding showing the expression of H2-Aa and H2-Ab1 on day 0 and day 4 (p_ adj <0.05 in ciliated cells with MAST test).

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