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Status |
Public on Oct 10, 2016 |
Title |
Systematic identification of Ctr9 regulome in ERα-positive breast cancer |
Organism |
Homo sapiens |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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Summary |
Ctr9, the key scaffold subunit of the human RNA polymerase II (RNAPII) associated factor complex (PAFc), has been demonstrated as a positive regulator of ERα-positive breast cancer progression and ERα-target gene expression. Previously, we found that knockdown of Ctr9 reduces ERα protein stability and decreases the occupancy of ERα and RNAPII at select ERα-target genes. However, the genome-wide regulation of the occupancy of ERα and RNAPII mediated by Ctr9 is still unclear. Here, we determined the genome-wide ERα and RNAPII occupancy in response to estrogen induction and/or Ctr9 knockdown by performing chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq). We found that loss of Ctr9 dramatically decreases the global occupancy of ERα and RNAPII, highlighting the significance of Ctr9 in regulating estrogen signaling in ERα-positive breast cancer cells. Combining this resource with previously published genomic data sets, we identified a unique subset of ERα and Ctr9 target genes, and further delineates the possible independent function of Ctr9 from other subunits in PAFc.
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Overall design |
ChIP-seq experiments for ERα and RNAPII
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Contributor(s) |
Zeng H, Lu L, Zhong X, Xu W |
Citation(s) |
27829357, 35137163 |
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Submission date |
Apr 27, 2016 |
Last update date |
Mar 09, 2022 |
Contact name |
Xuehua Zhong |
Organization name |
Wisconsin Institute for Discovery
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Department |
Epigenetics
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Street address |
330 N. Orchard St.
|
City |
Madison |
State/province |
WI |
ZIP/Postal code |
53705 |
Country |
USA |
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Platforms (1) |
GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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Samples (12)
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Relations |
BioProject |
PRJNA319816 |
SRA |
SRP074073 |