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| Status |
Public on Jul 24, 2013 |
| Title |
The yeast Snt2 protein helps coordinate the transcriptional response to hydrogen-peroxide mediated oxidative stress (RNA-seq) |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Snt2 is a yeast chromatin-interacting protein whose function has not been well characterized, that was recently shown to associate with Ecm5 and the Rpd3 deacetylase. Using chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq), we show that in response to H2O2, Snt2 and Ecm5 colocalize to promoters of genes involved in various aspects of the environmental stress response. By integrating these ChIP-seq results with expression analysis, we identify a key set of target genes that require Snt2 for proper expression after H2O2 stress. Finally, by mapping Snt2 and Ecm5 localization before and after rapamycin treatment, we identify a subset of H2O2-specific Snt2 and Ecm5 target promoters that are also targeted in response to rapamycin. Our results establish a function for Snt2 in regulating transcriptional changes in response to oxidative stress, and suggest Snt2 may have a role in additional stress pathways.
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| Overall design |
RNA-seq analysis to look at gene expression levels in wild-type, snt2 deletion, or ecm5 deletion strains before or 0.5 hours after treatment with H2O2 (final concentration 0.4 mM). This sequencing was done on biological triplicate samples.
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| Contributor(s) |
Baker LA, Dewell S, Zheng D, Allis CD, Ueberheide BM, Chait BT |
| Citation(s) |
23878396 |
| |
| Submission date |
Dec 18, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
David Allis |
| Organization name |
The Rockefeller University
|
| Department |
Laboratory of Chromatin Biology and Epigenetics
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| Lab |
Allis Laboratory
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| Street address |
1230 York Ave Box 78
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
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| Samples (18)
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| This SubSeries is part of SuperSeries: |
| GSE43002 |
The yeast Snt2 protein helps coordinate the transcriptional response to hydrogen-peroxide mediated oxidative stress |
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| Relations |
| BioProject |
PRJNA184040 |
| SRA |
SRP017603 |
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