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Series GSE93871 Query DataSets for GSE93871
Status Public on Jun 12, 2017
Title Chromatin remodelers CHD9 and BRM are required for dex-regulated expression of block genes in U2OS-GR⍺ cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary The glucocorticoid-activated glucocorticoid receptor (GR) regulates cellular stress pathways by binding to genomic regulatory elements of target genes and recruiting coregulator proteins to remodel chromatin and regulate transcription complex assembly. The coregulator Hydrogen peroxide-inducible clone 5 (Hic-5) is required for glucocorticoid regulation of some genes, but not others, and blocks regulation of a third gene set. Hic-5 inhibits GR binding to blocked genes but not other glucocorticoid-regulated genes. Site-specific blocking of GR binding is due to gene-specific requirements for ATP-dependent chromatin remodeling enzymes. We investigate whether ATPases CHD9 and BRM were required for glucocorticoid-regulated expression of Hic-5 blocked genes.
 
Overall design Since Hic-5 inhibits the actions of CHD9 and BRM, we performed double depletion of Hic-5 and CHD9 or Hic-5 and BRM in U2OS-GR⍺ cell using siRNA and examined gene expression changes at 8 hour dexamethasone (dex) or ethanol (etoh, vehicle control) treatment. Single depletion of CHD9, BRM, Hic-5 and control siRNA (siNS) followed by hormone treatment were performed as contrast and control.
 
Contributor(s) Lee BH, Stallcup MR
Citation(s) 28381557
Submission date Jan 19, 2017
Last update date May 15, 2019
Contact name Brian Hae Kang Lee
E-mail(s) leebh@usc.edu
Organization name University of Southern California
Department Biochemistry and Molecular Medicine
Lab Michael R. Stallcup
Street address 1441 Eastlake Avenue, NOR 6316
City Los Angeles
State/province CA
ZIP/Postal code 90089
Country USA
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (36)
GSM2464323 siNSsiNS etoh replicate 1
GSM2464324 siNSsiNS dex replicate 1
GSM2464325 siHic5siNS etoh replicate 1
Relations
BioProject PRJNA362625
SRA SRP097203

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE93871_Genes_CPM_abundance_UQnormailzed.csv.gz 1.1 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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