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Series GSE142183 Query DataSets for GSE142183
Status Public on Jan 09, 2020
Title Two separate roles for the transcription coactivator SAGA and a set of genes redundantly regulated by TFIID and SAGA [ChIP-Seq]
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Deletions within genes coding for subunits of the transcription coactivator SAGA caused strong genome-wide defects in transcription and SAGA-mediated chromatin modifications. In contrast, rapid SAGA depletion produced only modest transcription defects at 13% of protein-coding genes – genes that are generally more sensitive to rapid TFIID depletion. However, transcription of these “coactivator-redundant” genes is strongly affected by rapid depletion of both factors, showing the overlapping functions of TFIID and SAGA at this gene set. We suggest that this overlapping function is linked to TBP-DNA recruitment. The remaining 87% of expressed genes that we term “TFIID-dependent” are highly sensitive to rapid TFIID depletion and insensitive to rapid SAGA depletion. Genome-wide mapping of SAGA and TFIID found binding of both factors at many genes independent of gene class. DNA analysis suggests that the distinction between the gene classes is due to multiple components rather than any single regulatory factor or promoter sequence motif.
 
Overall design Standard ChIP-seq approach including crosslinking, chromatin extraction, DNA fragmentation and immunoprecipitation. All experiments were done in two biological replicates (A and B).
 
Contributor(s) Donczew R, Warfield L, Pacheco D, Erijman A, Hahn S
Citation(s) 31913117
Submission date Dec 17, 2019
Last update date Apr 09, 2020
Contact name Rafal Donczew
E-mail(s) Rafal-donczew@omrf.org
Organization name Oklahoma Medical Research Foundation
Department Cell Cycle and Cancer Biology
Lab Hahn Lab
Street address 825 NE 13th St
City Oklahoma City
State/province OK
ZIP/Postal code 73104
Country USA
 
Platforms (1)
GPL17342 Illumina HiSeq 2500 (Saccharomyces cerevisiae)
Samples (32)
GSM4222254 Spt37degDMSO_A
GSM4222255 Spt37degDMSO_B
GSM4222256 Spt37degDMSO_input_A
This SubSeries is part of SuperSeries:
GSE142122 Two separate roles for the transcription coactivator SAGA and a set of genes redundantly regulated by TFIID and SAGA
Relations
BioProject PRJNA596269
SRA SRP238022

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Supplementary file Size Download File type/resource
GSE142183_RAW.tar 949.6 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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