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Series GSE14664 Query DataSets for GSE14664
Status Public on Mar 09, 2009
Title ChIP-Seq of ERalpha and RNA polymerase II defines genes differentially responding to ligands
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We used ChIP-Seq to map ERalpha binding sites and to profile changes in RNA polymerase II (RNAPII) occupancy in MCF-7 cells in response to estradiol (E2), tamoxifen or fulvestrant. We identified 10,205 high confidence ERalpha binding sites in response to E2 of which 68% contained an estrogen response element (ERE) and only 7% contained a FOXA1 motif. Remarkably, 596 genes already change significantly in RNAPII occupancy (59% up and 41% down) following one hour of E2 exposure. Although pausing of RNA polymerase II occurs frequently in MCF-7 cells (17%) it is only observed on a minority of E2-regulated genes (4%). Tamoxifen and fulvestrant partially reduce ERalpha DNA binding and prevent RNAPII loading on the promoter and coding body on E2-upregulated genes. Both antagonists act differently on E2-downregulated genes. Tamoxifen acts as an agonist, also downregulating these genes while fulvestrant antagonizes E2 induced repression and often increases RNAPII occupancy. Furthermore our data identified genes preferentially regulated by tamoxifen but not by E2 or fulvestrant. Thus, antagonist loaded ERalpha acts mechanistically different on E2-activated and E2-repressed genes.
Overall design Examination of ERalpha binding sites upon the binding of different ligands and association with transcription via RNAPII occupancy.
Contributor(s) Stunnenberg HG, Welboren W, Span P, Sweep F, Van Driel M, Janssen-Megens E, Van Heeringen S
Citation(s) 19339991
Submission date Jan 30, 2009
Last update date May 15, 2019
Contact name H.G. Stunnenberg
Phone +31-24-3610520
Organization name Radboud University
Department Department of Molecular Biology (274)
Street address Geert Grooteplein 28
City Nijmegen
ZIP/Postal code 6525 GA
Country USA
Platforms (1)
GPL9052 Illumina Genome Analyzer (Homo sapiens)
Samples (8)
GSM365925 ERalpha control
GSM365926 ERalpha E2
GSM365927 ERalpha Tam
SRA SRP000728
BioProject PRJNA112357

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Supplementary file Size Download File type/resource
GSE14664_RAW.tar 337.9 Mb (http)(custom) TAR (of BED, TXT)
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Processed data provided as supplementary file
Raw data are available in SRA

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