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Series GSE40064 Query DataSets for GSE40064
Status Public on Sep 23, 2013
Title H2AZ extended acidic patch is necessary for formation specialized chromatin states in ESCs [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The H2A variant H2AZ is essential for embryonic development and for proper execution of developmental gene expression programs in embryonic stem cells (ESCs). Divergent regions in H2AZ are likely key for its functional specialization, but we know little about how these differences contribute to chromatin regulation. Here, we show that the extended acidic patch, specifically the three divergent residues in the C-terminal docking domain, is necessary for lineage commitment during ESC differentiation and proper execution of gene expression programs during ESC differentiation. Surprisingly, disruption of the acidic patch domain has a distinct consequence on cellular specification compared to H2AZ depletion. This is consistent with differences in gene expression profiles of H2AZ –depleted and acidic patch (AP) mutant ESCs during early lineage commitment. Interestingly, the distinct consequence of AP mutant expression on gene regulation is coincidence with an altered destabilized chromatin state and high chromatin mobility dependent on active transcription. Collectively, our data shows that the divergent residues within the acidic patch domain are key structural determinants of H2AZ function and links chromatin structure and dynamics with gene regulation and cell fate specification.
Overall design H2AZ extended acidic patch was mutated, or H2AZ was KD in mouse embryonic stem cells and RNA-Seq analysis was performed on the resulting cultures. Characterization of H2AZ-WT and -AP3-mutant binding specificities were performed by ChIP-Seq.
Contributor(s) Subramanian V, Boyer LA
Citation(s) 23990805
Submission date Aug 13, 2012
Last update date May 15, 2019
Contact name Laurie A Boyer
Phone 617 324-3335
Organization name Massachusetts Institute of Technology
Department Biology
Lab Boyer
Street address 77 Massachusetts Avenue
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (6)
GSM984547 H2AZ WT Day0
GSM984548 H2AZ KD Day0
GSM984549 H2AZ-AP3 variant Day0
This SubSeries is part of SuperSeries:
GSE40065 H2AZ extended acidic patch is necessary for formation specialized chromatin states in ESCs
BioProject PRJNA172651
SRA SRP014791

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Supplementary file Size Download File type/resource
GSE40064_RNA-Seq_expression.txt.gz 1.3 Mb (ftp)(http) TXT
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