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Series GSE112491 Query DataSets for GSE112491
Status Public on May 22, 2018
Title BRG1 governs Glucocorticoid Receptor interactions with chromatin and pioneer factors across the genome
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary The Glucocorticoid Receptor (GR) alters transcriptional activity in response to hormones by interacting with chromatin at GR binding sites (GBSs) throughout the genome. Our work in human breast cancer cells identifies three classes of GBSs with distinct epigenetic characteristics and reveals that BRG1 interacts with GBSs prior to hormone exposure. The GBSs pre-occupied by BRG1 are more accessible and transcriptionally active than other GBSs. BRG1 is required for a proper and robust transcriptional hormone response and knockdown of BRG1 blocks recruitment of the pioneer factors FOXA1 and GATA3 to GBSs. Finally, GR interaction with FOXA1 and GATA3 binding sites was restricted to sites pre-bound by BRG1. These findings demonstrate that BRG1 establishes specialized chromatin environments that define multiple classes of GBS. This in turn predicts that GR and other transcriptional activators function via multiple distinct chromatin-based mechanisms to modulate the transcriptional response.
 
Overall design ChIP-seq and RNA-seq in A1-2 and A1A3 cells (both derived from T47D human breast cancer cells)
 
Contributor(s) Hoffman JA, Trotter KW, Ward JM, Archer TK
Citation(s) 29792595
Submission date Mar 29, 2018
Last update date Mar 26, 2019
Contact name Jackson Andrew Hoffman
E-mail(s) jackson.hoffman@nih.gov
Organization name NIEHS
Department DIR
Lab ESCBL
Street address 111 TW Alexander Dr, Building 101 Room C432
City Research Triangle Park
State/province North Carolina
ZIP/Postal code 27709
Country USA
 
Platforms (2)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (44)
GSM3071268 GR_EtOH_ChIPseq
GSM3071269 GR_Dex_ChIPseq
GSM3071270 Brg1_EtOH_ChIPseq
Relations
BioProject PRJNA447949
SRA SRP136702

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
GSE112491_A1A3_RNAseq_log2normalized_geneCounts.xlsx 8.7 Mb (ftp)(http) XLSX
GSE112491_RAW.tar 13.6 Gb (http)(custom) TAR (of BED, BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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