 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Apr 09, 2012 |
| Title |
ERα and PolII ChIP seq from Mouse Uterus |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
To advance understanding of mechanisms leading to biological and transcriptional endpoints related to estrogen action in the mouse uterus, we have mapped ERα and RNA polymerase II binding sites using chromatin immunoprecipitation (ChIP) followed by sequencing of enriched chromatin fragments (ChIP-seq). In the absence of hormone, 5184 ERα binding sites were apparent in the vehicle treated ovariectomized uterine chromatin, while 17240 were seen one hour after estrogen (E2) treatment, indicating that some sites are occupied by unliganded ERα, and that ERα binding is increased by E2. Approximately 15% of the uterine ERα binding sites were adjacent to (<10 KB) annotated transcription start sites and many sites are found within genes or are found more than 100 KB distal from mapped genes; however, the density (sites per bp) of ERα binding sites is significantly greater adjacent to promoters. An increase in quantity of sites but no significant positional differences were seen between vehicle and E2 treated samples in the overall locations of ERα binding sites either distal from, adjacent to or within genes. Analysis of the PolII data revealed the presence of poised promoter proximal PolII on some highly upregulated genes. Additionally, co-recruitment of PolII and ERα to some distal enhancer regions was observed. A de novo motif analysis of sequences in the ERα bound chromatin confirmed that estrogen response elements (EREs) were significantly enriched. Interestingly, in areas of ERα binding without predicted ERE motifs, homeodomain transcription factor (Hox) binding motifs were significantly enriched. The integration of the ERα and PolII binding sites from our uterine ChIP-seq data with transcriptional responses revealed in our uterine microarrays has the potential to greatly enhance our understanding of mechanisms governing estrogen response in uterine and other estrogen target tissues.
|
| |
|
| Overall design |
one sample each, vehicle ER-alpha ChIP seq,1 hour estradiol ER-alpha ChIP seq, vehicle RNA polymerase II ChIP seq,1 hour estradiol RNA polymerase II ChIP seq, input DNA
|
| |
|
| Contributor(s) |
Hewitt SC, Li L, Grimm SA, Chen Y, Liu L, Li Y, Bushel PR, Fargo D, Korach KS |
| Citation(s) |
22446102 |
| Submission date |
Mar 13, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Sylvia C Hewitt |
| E-mail(s) |
sylvia.hewitt@nih.gov, curtiss@niehs.nih.gov
|
| Phone |
9842874317
|
| Organization name |
NIEHS
|
| Department |
RDBL
|
| Lab |
Pregnancy & Female Reproduction
|
| Street address |
111 Alexander Dr
|
| City |
Research Triangle Park |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
|
| Samples (5)
|
| GSM894056 |
WT 1h E2 RNA polymerase II ChIP-seq |
| GSM894057 |
input chromatin (WT V and WT 1hE2 mixed) |
|
| This SubSeries is part of SuperSeries: |
| GSE56501 |
ER and RNA PolII ChIP-seq in WT and ER mutant mouse uterus |
|
| Relations |
| SRA |
SRP011428 |
| BioProject |
PRJNA153551 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE36455_RAW.tar |
1.2 Gb |
(http)(custom) |
TAR (of BED, BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...