Extended Data Fig. 2: Examination of possible factors affecting H3.3 distribution and H3.3 ULI-NChIP-seq data with A/B compartments or histone modifications.
From: Reprogramming of the histone H3.3 landscape in the early mouse embryo
a, Stacked bar charts showing the complexity and quality of the H3.3 ULI-NChIP-seq mapped reads. The proportion of PCR duplicates and MAPQ score were used to assess the complexity and quality of the mapped reads, respectively. b, Genome browser snapshots showing normalized H3.3 enrichment in adult neurons, MII oocytes, zygotes, and 2-cell embryos. H3.3 ChIP-seq data for hippocampal neurons was obtained from GSE69806 (ref. 30). c, Immunostaining for H3.3S31P in FGOs, MII oocytes, zygotes, and 2-cell embryos. Representative images from two independent experiments are shown. n = 16 FGOs, 19 MII oocytes, 12 zygotes, and 15 2-cell embryos. Scale bar = 5 μm. d, Immunostaining for H3.3 in FGOs, MII oocytes, zygotes, and 2-cell embryos. Representative images from two independent experiments are shown. n = 10 FGOs, 15 MII oocytes, 11 zygotes, and 6 2-cell embryos. Scale bar = 5 μm. e, Genome browser snapshots showing normalized H3.3 enrichment and A/B compartments. Assignment of A/B compartment was performed using published Hi-C data (GSE82185)32. f, Bar graph showing the overlap between histone modification and genomic regions that show gain or loss of H3.3 during the zygote-to-2-cell progression. The numbers below indicate the number of bins (10 kb) analyzed.
