Fig. 4
From: scMC learns biological variation through the alignment of multiple single-cell genomics datasets
scMC reveals specific fibroblast subpopulations in control and Hedgehog activation during mouse skin wound healing. a, b UMAP of the corrected data from LIGER, Seurat V3, Harmony, and scMC across two conditions. a Cells are colored by experimental conditions. b Cells are colored based on the annotated cell labels determined based on the cell clusters identified by scMC by examining the expression patterns of known markers (Additional file 2: Figure S5). c Overlay the expression levels of fibroblasts pan-markers (Pdgfra and Lox) and Hh-active fibroblast markers (Ptch1 and Gil1) onto the UMAP space of LIGER, Seurat V3, Harmony, and scMC, respectively. Dark red and gray colors represent the high and zero expression, respectively. d Heatmap showing the expression patterns of the top 10 marker genes enriched in Hh-inactive and Hh-active fibroblast subpopulations. e The top 10 enriched GO biological processes of the marker genes associated with the Hh-inactive and Hh-active fibroblast subpopulations