Figure 4.

Hyper-aDMRs are enriched for inactive histone modifications in CD4⁺ T-cells and bivalent chromatin domains in embryonic/haematopoietic stem cells. We collected the maximum tag-count within 200 bp of each CpG site on the Illumina27K array for a range of published ChIP-seq data sets (Barski et al. 2007; Zhao et al. 2007; Cui et al. 2009) (A) The ratios are plotted of mean tag count in CD4⁺ T-cells across the hyper-aDMR set, to mean tag count across the data set as a whole. Boxes represent 50% credible intervals on our estimate of the ratio, and whiskers represent 95% credible intervals (bootstrapped). Box-and-whisker plots above “1” represent significant enrichment, whereas below “1” represents significant depletion relative to the genome average. A figure showing correlations with all the ChIP-seq data reported in Barski et al. (2007) is shown in Supplemental Figure 1. (B) As in A, but analysis of hyper-aDMR promoters in human embryonic and haematopoietic stem cells.