Fig. 2: Single-cell methylation profiles and comparison of corresponding pseudo-bulk profiles with WGBS and 450 K array cell-bulk profiles.
From: Bisulfite-free epigenomics and genomics of single cells through methylation-sensitive restriction
a Averaged epi-gSCAR methylation profiles (K_08–K_27 and O_01–O_20; light blue lines) and corresponding pseudo-bulk (light blue lines) and cellbulk profiles (WGBS, red lines; 450 K array, green lines) across five histone marks. b Averaged epi-gSCAR methylation profiles (K_08–K_27 and O_01–O_20; light blue lines) for CGIs, all genes (all GENCODE basic genes) and genes grouped into three groups (0–20%, >20–60%, and >60–100%) based on their RNA expression level in cell bulk as FPKM (fragments per million mapped reads per kilobase exon), and corresponding pseudo-bulk (light blue lines) and cell-bulk profiles (WGBS, red lines; 450 K array, green lines). For plotting of pseudo-bulk datasets, we used HhaI sites covered in at least 5 of 20 single cells in order to reduce coverage bias. Shown is the mean methylation across 150 bp windows for each feature set and 3 kb upstream and downstream.
