Comparison of groups of chromatin features. Twelve chromatin features are grouped into four categories according to their known function in gene regulation: promoter marks (H3K4me2, H3K4me3, H2A.Z, H3K9ac, and H3K27ac), structural marks (H3K36me3 and H3K79me2), repressor marks (H3K27me3 and H3K9me3), and distal/other marks (H3K4me1, H4K20me1, and H3K9me1). Correlation coefficients are shown for individual categories, a combination of promoter with three other categories, all histone marks (HM), and HM together with DNase I hypersensitivity are shown in the boxplot for CAGE (TSS-based), RNA-PET (TSS-based), and RNA-Seq (Tx-based) expression data. It indicates that for TSS-based data, promoter marks are the most predictive among the four categories, while for Tx-based expression, structural marks are the most predictive.
Dong et al. Genome Biology 2012 13:R53 doi:10.1186/gb-2012-13-9-r53