Extended Data Figure 6 : Concordance and characteristics of silencer cCREs

Extended Data Figure 6 | Concordance and characteristics of silencer cCREs

a, Boxplots with overlaid scatterplots depicting the percentage of silencer cCREs with high chromatin accessibility in each biosample (N = 1,325), grouped by biosample type. Boxplots show the median (center line), interquartile range (IQR, box), and whiskers extending to the most extreme data points within 1.5× the IQR; points are shown for individual biosamples. b, Boxplots (as defined in panel a) with overlaid scatterplot depicting the log2 fold enrichment for high chromatin accessibility at silencer cCREs compared to all cCREs, grouped by biosample type. c, Boxplots (as defined in panel a) depicting log2 fold enrichment for high chromatin accessibility at REST+ silencer cCREs compared to all cCREs for matched embryonic and adult tissues. Differences between all matched adult and embryonic tissues were significantly different (two-sided Wilcoxon tests). d, Heatmap depicting the fraction of cCREs in each category overlapping RepeatMasker elements. Groups include cCREs overlapping previously published silencers, REST+ enhancer/silencer cCREs, REST+ silencer cCREs, STARR-defined silencer cCREs, K562 promoter cCREs, K562 distal enhancer cCREs, cCREs with low chromatin accessibility (CA) in K562, and size-matched genomic regions that do not overlap any cCRE.