Extended Data Fig. 7: Clusters derived from scMulTI-Tag in hESC trilineage differentiation.

a) Violin plots describing distributions of unique reads per cell in H1 hESCs (left), endoderm (center-left), mesoderm (center-right), or ectoderm (right) for all cells with at least 100 unique reads originating from each of the three targets used in the experiments described in Fig. 4. Median values for total unique reads (black), H3K27me3 unique reads (red), H3K4me1 unique reads (orange) or H3K36me3 unique reads (teal) are displayed at the top of each violin. Number of cells described is displayed at top of each cell type group. b) UMAP plot for single cell MulTI-Tag data from projection of H3K36me3 data, with cells colored by Seurat cluster (left) or cell type (right). c) UMAP plots for single cell MulTI-Tag data from projection of H3K27me3 data (center), H3K4me1 data (right), or a weighted nearest neighbor integration of H3K27me3 and H3K4me1 data (left). Cells are colored by Seurat clusters. For each plot, four groups of representative clusters are highlighted with quadrants describing the fraction of H1 (top left), ectoderm (top right), endoderm (bottom left), or mesoderm (bottom right) cells contained in the highlighted clusters as a proportion of the total cells from each cell type contained in the experiment. Quadrants are colored based on the proportion of the maximum value in the quadrant.