Fig. 1

H3K4me1 in combination with H3K4me3 is able to partition promoters and predict bivalent promoters in hESCs. A Heatmaps and average line plots showing histone modification patterns of promoter CGIs and their shores in hESCs. Each line represents a single CpG island. B Average methylation patterns across CGIs and their shores of promoters in three clusters in hESCs as in (A). C Boxplot showing gene expression level in three clusters as in (A). Significance was examined with Kruskal–Wallis rank-sum test, ****p value < 0.0001. D Boxplot showing tissue-specific score (Tau) of genes in three clusters. Significance was examined with Kruskal–Wallis rank-sum test, ****p value < 0.0001. E Histograms showing GO-term enrichment for genes involved in three clusters as in (A). F Integrative Genomics Viewer (IGV) browser track showing histone modifications and DNA methylation patterns at promoter CGIs of three different clusters as in (A), respectively. G Tissue enrichment analysis for genes involved in three clusters as in (A). H Heatmaps and average line plots showing H3K4 and H3K27 methylation related HMTs (EZH2, SZU12 for H3K27; ASH2L, RBBP5 for H3K4; RYBP, CBX8 for H2AK119ub) and HDMTs (KDM1A, KDM5A for H3K4) patterns of promoter CGIs and their shores of three clusters respectively. Each line represents a single CpG island