Fig. 5

ECM associated and fibroblast cells were re-clustered to show a specific subpopulation of Ccl2⁺ cells. a Feature plot highlighting Epcam, Cd45, Cd31, Ng2, Cd52, and Krt14 negative cells to negatively select for ECM and fibroblast cells. b T-SNE plots of re-clustered ECM/Fibroblast clusters. c Bar plots showing the distribution of cells from two independent experiments in each ECM/Fibroblast cluster. Symbols indicate individual cell distributions for each of the two experimental replicates (triangle, circle). d Dendrogram showing the relationship of each ECM/fibroblast cluster with other clusters. e Heatmap showing the top 5 differentially expressed genes for each of the 7 ECM/Fibroblast clusters. f Heatmap on the MSigDB analysis based on the average normalized expression values of genes in the 7 ECM/Fibroblast cell clusters. Cluster F2 had the most upregulated pathways relative to all other fibroblast clusters. g Violin plots of selected genes emphasizing the unique gene signature of Esr1⁺ ECM/Fibroblast cells. Clusters F0, F1, and F2 had more cells with higher expression of Esr1 and Ccl2, whereas Egfr was observed in nearly all fibroblast clusters