The histone modification profile at TSSs and other sites. (A) The average Z-scored histone modification profile for ±10 kb surrounding each HMM-identified histone modification site split into sites at TSSs (within 5 kb) and sites >5 kb from a TSS. Histone modification signals are plotted as lines for the average Z-score over all HMM sites in each cluster with H3K4me1 (red), H3K4me2 (green), H3K4me3 (blue), H3ac (mauve), and H4ac (orange). (B) Heatmaps representing the histone modification enrichment signal over ±10 kb surrounding all TSSs across the ENCODE regions. Histone modification signal is scored on a red (not enriched) to yellow (highest enrichment) scale. Each horizontal line of the heatmap is the histone modification profile in 1-kb windows for a single gene. TSS and TSSs are ordered according to the level of gene expression determined by analysis of the Affymetrix U133 plus 2.0 data from the GM06990 cell line using the gcRMA package of Bioconductor. The scale is the distance from the TSS in bp using 1000-bp windows. A heatmap is presented for each of the five antibodies used as indicated above the panels.
