H3K27me3 hESC Epigenomics data

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Last updated: 2021-07-09

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Knit directory: hesc-epigenomics/

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Supplementary code and analysis for publication.

Publication figures

• Figure 1. High levels of H3K27m3 and H2AUb broadly cover the naïve pluripotent genome.
• Figure 2. X chromosome in naïve hESCs accumulate exceptional amounts of H3K27m3 without a globally repressive function.
• Figure 3. H3K27m3 is adaptive to gene expression changes between naïve and primed pluripotent state and contributes to repression of non-state specific genes.
• Figure 4. Loss of H3K27m3 in naïve hESCs derepresses a set of genes that drive hESCs towards a rare naturally ocurring intermediate pluripotent state.
• Figure 5. Loss of H3K27m3 in naïve hESCs activates trophectoderm and placental gene expression programs.

Supplementary data and analyses

• Master gene table. Notebook with the code that generates the master gene table.
• Master bins table. Notebook with the code that generates the master bins table.

Main data files

A large proportion of the figures shown in this publication can be drawn directly from values in the main tables:

• Gene table. Contains histone mark values across 5kb regions around gene TSS in the hg38 genome, RNA-seq plus statistics on differentially decorated promoters and differentially expressed genes across conditions. differentially decorated regions.
• Bins table. Gathers histone mark values across 10kb windows in the hg38 genome, plus statistics on differentially decorated regions across conditions.