iscChIC-seq robustly detects H3K27me3 profiles in human white blood cells. (A) A genome browser snapshot showing H3K27me3 profiles in human white blood cells. The top blue track shows the pooled single-cell data from iscChIC-seq. The bottom track shows 500 randomly selected single cells. The middle tracks display the ENCODE bulk-cell ChIP-seq data from different cells indicated on the left. (B) A Venn diagram showing the overlap of the enriched regions (peaks) of H3K27me3 profiles measured by ChIP-seq using bulk cells and by the pooled single-cell data. (C) A scatterplot of the H3K27me3 read density of ChIP-seq (bulk-cell) versus that of pooled single cells from iscChIC-seq (2000 cells were randomly selected) at the genome-wide divided bins (the size of bin is 50 kb). The Pearson's correlation is equal to 0.92. (D) A t-SNE visualization of cells by applying the t-SNE analysis on the matrix Ec. Cell type annotations of clusters were obtained by the analysis in part E. (E) A heat map showing the significance of the overlap between the cluster-specific peaks from the H3K27me3 iscChIC-seq data (Fig. 4D) and cell type–specific peaks from ENCODE H3K27me3 ChIP-seq data. The y-axis refers to the cluster-specific peaks and x-axis refers to the cell type–specific peaks. The values before the +/− sign refer to the average negative logarithm of the P-value for the overlap between the two types of peaks over 100 subsamples. The values behind the +/− sign refer to the standard deviation of the negative logarithm of the P-value over 100 subsamples.
