Supplementary Figure 5: Chromatin accessibility scores for validation of cell clusters from mouse brain.

(a) Schematic demonstrating the approach used to define chromatin accessibility scores surrounding gene promoters. (b) t-SNE of cells by promoter region chromatin accessibility scores for all genes. The same colors and cells (n = 46,653) used in Fig. 2a are shown here. (c) Hierarchical clustering of chromatin accessibility scores calculated as shown in (a) for each cluster derived from the mouse brain dscATAC-seq dataset using Pearson correlation. 27 clusters from Fig. 2a are depicted. (d) Representative chromatin accessibility scores for known marker genes defining cell types in the mouse brain, plots are titled by the marker gene and defined cell type. (e) Mouse brain cells in the t-SNE from Fig. 2a colored by per-cell log10 library complexity (n = 46,653 cells). (f) Per-cell log10 library complexity for each cluster derived from the mouse brain dscATAC-seq dataset. Center line, median; box limits, first and third quartiles; whiskers, 1.5x interquartile range. (g) Per-cell ratio of total reads in peaks to TSS reads per cluster. For number of cells per cluster see Supplementary Table 2.