Figure 4

Analysis of multiple factors associated with TF-responsiveness. (A, B) Percent unique variance of TF-responsiveness (B _i ) explained by various factors based on multi-variate linear regression in the group of genes with CpG islands (A) and with no CpG islands (B); "n/s" = non-significant. (C, D, and E) Relationship between TF-responsiveness (B _i , U _i , and D _i , respectively) among genes with CpG islands and the proportion of genes with H3K27me3 and H3K36me3 chromatin marks (scale on left side), and strength of H3K4 tri-methylation (number of ChIP-seq tags, scale on right side), estimated in groups of 100 genes with similar TF-responsiveness. (F, G, and H) Proportion of genes with H3K27me3 (F) and H3K36me3 (G) chromatin modifications, and strength of H3K4 tri-methylation (H) among responsive and non-responsive genes with CpG islands grouped by the level of their expression in ES cells; gene expression is estimated from RNA-seq data [19].