Figure 3

Alternative promoter activities in the gene body. A) H3K4me3, CAGE tag and DNA Methylation levels were compared between K562 specific genes and housekeeping genes in the K562 cell line. All data were controlled by region lengths. H3K4me3 and CAGE tag levels have been further controlled by gene expression levels. DNA methylation levels have been further controlled by CpG island lengths. Red, blue, and green boxes represent data in exonic, intronic, and whole gene body regions for K562 specific genes respectively. Blank boxes represent data in housekeeping genes for the same type of regions as the box next to its left. The Wilcoxon rank sum test P-values between the K562 specific genes and housekeeping genes are shown by the '*' (P < 0.05) and '**' (P < 0.0001); B) Detailed data of H3K4me3, CAGE, and DNA methylation density for K562 specific gene TNNI3.