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Series GSE42154 Query DataSets for GSE42154
Status Public on Sep 30, 2013
Title Hira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse embryonic stem cells (ESCs) that H3.3 is required for proper establishment of H3K27me3 at the promoters of developmentally regulated genes. These promoters show reduced dynamics as determined by deposition of de novo synthesized histones, associated with reduced PRC2 occupancy. H3.3-depleted ESCs show upregulation of extraembryonic trophectoderm, as well as misregulation of other developmental genes upon differentiation. Our data demonstrate the importance of H3.3 incorporation in ESCs and suggest that changes in chromatin dynamics in its absence lead to misregulation of gene expression during differentiation. Moreover, our findings lend support to the emerging notion that H3.3 has multiple functions in distinct genomic locations that are not always correlated with an “active” chromatin state.
Overall design RNA-seq analysis of three embryonic stem cell lines (control, H3.3 KD1, and H3.3 KD2)
Contributor(s) Banaszynski LA, Dewell S, Zheng D, Allis CD
Citation(s) 24074864
Submission date Nov 08, 2012
Last update date May 15, 2019
Contact name Laura Banaszynski
Organization name UT Southwestern Medical Center
Department Green Center for Reproductive Biology Sciences
Street address 5323 Harry Hines Blvd
City Dallas
State/province TX
ZIP/Postal code 75390-8511
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (3)
GSM1033649 ESC_Control_RNA-seq
GSM1033650 ESC_H33KD1_RNA-seq
GSM1033651 ESC_H33KD2_RNA-seq
This SubSeries is part of SuperSeries:
GSE42155 Hira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells
BioProject PRJNA179217
SRA SRP017129

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Supplementary file Size Download File type/resource
GSE42154_RAW.tar 120.6 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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