Extended Data Fig. 7: Analyses of H3K4me3-marked enhancers in oocytes and embryos.
a, The UCSC browser view showing H3K4me3 signals in control and Dnmt3a/b knockout FGOs40, and H3K27ac and DNA methylation signals in wild-type FGOs. H3K4me3-gain regions upon Dnmt3a/b knockout are shaded. b, Top, line charts showing H3K4me3 signals at putative enhancers (orange) and promoters (green) in wild-type (left) and Dnmt3a/b KO (right) mESCs. The dashed lines indicate the peaks of H3K4me3 signals at putative enhancer regions. Bottom, the UCSC browser views showing H3K4me3 signals at promoters and putative enhancers (annotated ENCODE dCRE) at representative genes in wild-type and Dnmt3a/b KO mESCs. Putative enhancer and promoter regions are shaded orange and green, respectively. c, Bar chart showing the percentages of H3K27ac/H3K4me3 co-marked and H3K27ac only marked enhancers bound by distal Pol II34 at each stage. d, Line charts showing the cumulative distribution of the distance between transcription start sites (TSSs) of active gene and nearest distal putative enhancers marked by either H3K27ac only (blue) or both H3K27ac and H3K4me3 (red) in FGO (left) and the 8-cell embryos (right). e, Bar chart showing the percentages of H3K27ac only (blue) and H3K27ac/H3K4me3 (red) peaks that also overlap ENCODE dCREs. f, Bar chart showing the percentages of CAGE-defined enhancer sites that also overlap H3K27ac sites, H3K4me3 sites, or both. Random sites with identical lengths and numbers were similarly analysed as controls.
