Extended Data Figure 3: Characterization of promoter and distal H3K4me3 in mouse gametes and early embryos.
From: Allelic reprogramming of the histone modification H3K4me3 in early mammalian development
a, Scatter plots showing the relationship between the expression levels of all genes and their promoter H3K4me3 enrichment (Z-score-normalized) for each development stage. Mouse ES cell data from ENCODE are used as control. Spearman correlation coefficients are also shown. b, Moving average plots (window = 100 genes, moving step = 1 gene) showing the relationship between the expression levels of non-maternal genes and their promoter H3K4me3 enrichment (Z-score-normalized) for each stage after major ZGA. c, The genomic distributions of H3K4me3 peaks are shown for early embryos and mES cells. TSS, transcription start site (±2.5 kb); TES, transcription end site (±2.5 kb). d, A bar chart showing the percentages of all mappable reads that can be aligned to RepBase for mouse embryos of various stages. The error bars denote the standard deviations of two biological replicates of RNA-seq for each stage. e, Enrichment of repeats (log ratio of observed/random) in H3K4me3 promoter and distal peaks compared to that in random peaks at each stage. f, The enrichment (log ratio of observed/random) of top repeat subfamily members in distal H3K4me3 peaks in mouse embryos of various stages and mES cells. g, The snapshots of distal H3K4me3 signals near various types of repeats.
