Fig. 6: Chromatin association of RBPs and overlap with RNA binding.

a, Overlap between RBP ChIP–seq and DNase I hypersensitive sites and various histone marks in HepG2 and K562 cells. Labels indicate marks associated with regulatory regions (RE), promoters (TSS), enhancers (E), transcribed regions (T) and repressive regions (R). b, Heatmap indicates the Jaccard indexes between ChIP–seq peaks of different RBPs at promoter regions (bottom left) or non-promoter regions (top right) for all HepG2 ChIP–seq data sets. See Extended Data Fig. 9b for all labels and Extended Data Fig. 9c for K562 cells. c, Percentage of RBP eCLIP peaks overlapped by ChIP–seq peaks (red) and percentage of RBP ChIP–seq peaks overlapped by eCLIP peaks (green) for the same RBP. RBPs are sorted by decreasing level of overlapped ChIP–seq peaks. d, Clustering of overlapping chromatin- and RNA-binding activities of different RBPs at non-promoter regions in HepG2. Colour indicates the degree of ChIP enrichment at eCLIP peaks relative to surrounding regions. Significant enrichments (P ≤ 0.001 by two-sided Wilcoxon rank-sum test with no multiple comparison correction) are indicated by filled circles. e, Cross-RBP comparison of chromatin and RNA-binding activities in HepG2 cells. Left, ChIP–seq density of indicated RBPs around HNRNPK, PCBP2 or PCBP1 eCLIP peaks. Right, eCLIP average read density of indicated RBPs around HNRNPK, PCBP2 or PCBP1 eCLIP peaks.