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. 2021 Oct 29;12:6242. doi: 10.1038/s41467-021-26495-2

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© The Author(s) 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — A Workflow of mouse skin scar model and two-timepoint (n = 2 per timepoint) scRNAseq. B Phylogenetic clustertree calculated unsupervised based on unsupervised UMAP-clustering. C UMAP-plots of mouse scar tissue, split by timepoint, after integration of all samples, identifying four fibroblast clusters (mFB1-4), smooth muscle cells and pericytes (mPC/SMC), endothelial cells and lymphatic endothelial cells (mEC/LEC), T cells, dendritic cells (mDC), Langerhans cells (mLC), nine keratinocyte clusters (KC1-9), adipocytes (mAdipo), and melanocytes (Mel). D Pie charts show relative numbers of cells in clusters, split by timepoint. Feature plots and bar graphs of number of differentially expressed genes (nDEG) per cluster of E up- and F downregulated genes per cluster. G, H Violin plots of ECM-associated genes. Acta2 skin vs 6w p = 2.22e−16; 6w vs 8w p = 1.4e−6; Col1a1 p = 2.22e−16, p = 0.23; Col3a1 p = 2.22e−16, p = 0.0079, Col5a1 p = 2.22e−16; p = 5e−5, Fn1 p = 2.22e−16; p = 5.5e−10; Fbln1 p = 1.3e−10, 2.22e−16; Lum p = 0.065, p = 2.22e−16; Ogn p = 9.3−0.5, p = 2.22e−16; Pcolce p = 2.22e−16, 2.22e−16; Tgfbi p = 0.023, p = 2.22e−16. Vertical lines in violin plots represent maximum expression, shape of each violin represents all results, and width of each violin represents frequency of cells at the respective expression level. DEGs were calculated per cluster comparing 8- vs 6-week-old scars using a two-sided Wilcoxon-signed rank test, including genes with average logarithmic fold change (avg_logFC) of >0.1 or <−0.1 and Bonferroni-adjusted p-value <0.05. Feature plots show projection of nDEG onto the UMAP-plot, color intensity represents nDEG. Bar graphs show absolute number of nDEG per cluster, y-axis represents nDEG. UMAP uniform manifold approximation and projection.