Figure 3

Quantitative differences in H3K4me3 marks between two cell lines are strongly correlated with cell type-specific expression of peak targets. (a) Enrichment of the target genes of all common H3K4me3 peaks in H1 ES cells and K562 cells in cell type-specifically expressed genes as identified by SAM (see Materials and methods). The target genes were grouped by the M values of nearby peaks and the enrichment scores were calculated as the ratio of overlap between target genes grouped by M value and differentially expressed genes compared to expected overlap at random. (b,c) Enrichment of the the target genes of all unique H3K4me3 peaks in H1 ES cells (b) or K562 cells (c) in cell type-specifically expressed genes.