Fig. 2

Cell population sub-structure and marker gene expression (a-c) tSNE plots of the three datasets. Colors now represent fine-tuned unsupervised graph-based clustering, with similar colorations relating to the results of the first clustering step. Comparable cell populations identified in multiple samples are visualized using the same color. For reference, sub-cluster numbers are added. d-f Dot plots of sub-cluster marker gene expression. Averaged expression level (heatmap) and percentage of cells showing > 0 expression (dot size) is visualized across all samples, for all identified sub-clusters. Same color-coding for sub-clusters identification is used as in (a-c)