Figure 7
KDM5B regulates H3K4 methylation at bivalent genes during differentiation without LIF and Oct4. (A) Relationship between changes in promoter H3K4me3 density during differentiation and the percentage of genes with bivalent marks (H3K4me3/H3K27me3), using a sliding window of 500 genes (red, increased H3K4me3; black, no-change in H3K4me3; green, decreased H3K4me3). (B) Average profile of H3K4me3 density at genes with increased H3K4me3 during shKdm5b differentiation. RPBM, reads per base pair per million reads. (C)  Oct4-regulatable ES cells (ZHBTc4) infected with shLuc or shKdm5b lentiviral particles were (D) cultured in the presence of doxycycline to downregulate OCT4 levels and induce differentiation. Relationship between changes in promoter H3K4me3 density during differentiation in the absence of OCT4 and KDM5B and the percentage of genes with bivalent marks (red, increased H3K4me3; black, no-change in H3K4me3; green, decreased H3K4me3). (E) Browser view of H3K4me3 density following differentiation of shKdm5b ZHBTc4 ES cells. (F) Relationship between changes in gene body H3K4me3 density during differentiation and the percentage of genes with bivalent marks.