Fig. 3
From: Profiling human breast epithelial cells using single cell RNA sequencing identifies cell diversity
Combined droplet based RNAseq data to identify generalizable cell types and states. a–c Heatmaps showing gene scoring results using marker genes for Ind4 clusters (0–10; on bottom of heatmap) in all clusters from Ind5 (a), Ind6 (b), and Ind7 (c). Individual-specific cluster IDs are shown in different colors on the right and bottom, and cell type IDs for Basal (b), L1, L2, X are indicated on for every cluster. Data shown as Z scores from purple (low) to yellow (high). Two distinct cell states L1.1 and L1.2 were found within L1 in all pairwise comparisons as highlighted by colored boxes on heatmap. d Combined tSNE projection of all individual datasets (outlined) is shown including the cell state identity marked by different colors. e Heatmap showing the expression pattern of the top ten markers per cell state with selected markers indicated (yellow = high expression; purple = low expression). See Supplementary Fig. 4 for separate basal cell Seurat analysis, summary of cell state designations and Ingenuity Pathway Analysis
