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| Status |
Public on Oct 31, 2006 |
| Title |
Identification of SRF binding sites in Three Human Cell types |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by genome tiling array
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| Summary |
We used chromatin immunoprecipitation (ChIP) in combination with human promoter microarrays to identify 216 putative SRF binding sites in the human genome. We performed independent quantitative PCR validation at over half of these sites that resulted in 146 sites we assert to be true binding sites at over 90% confidence. Nearly half of the sites are bound by SRF in only one of the three cell types we tested, providing strong evidence for the diverse roles for SRF in different cell types.
Keywords: ChIP-chip
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| Overall design |
SRF binding was tested in three different cell lines. It was validated by qPCR. Using the proximal promoter arrays, we are assaying binding in approximately 19,000 human promoters.
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| Citation(s) |
17200232 |
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| Submission date |
Oct 09, 2006 |
| Last update date |
Mar 16, 2012 |
| Contact name |
Sara Cooper |
| Organization name |
Stanford University
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| Department |
Genetics
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| Street address |
300 Pasteur Drive
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (2) |
| GPL4089 |
Agilent-013902 Human Proximal Promoter ChIP-on-Chip Set, Microarray 1 of 2 G4481A |
| GPL4090 |
Agilent-013903 Human Proximal Promoter ChIP-on-Chip Set, Microarray 2 of 2 G4481A |
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| Samples (20)
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| GSM139286 |
Serum Response Factor ChIP tiling array |
| GSM139288 |
SRF 24 hour serum induction, replicate 1, array b Jurkat |
| GSM139289 |
SRF 24 hour serum induction, replicate 2, array a Jurkat |
| GSM139290 |
SRF 24 hour serum induction, replicate 2, array b Jurkat |
| GSM139291 |
SRF 24 hour serum induction, replicate 3, array a Jurkat cells |
| GSM139292 |
SRF 24 hour serum induction, replicate 3, array b Jurkat cells |
| GSM139293 |
SRF No Treatment, replicate 1, array a Jurkat cells |
| GSM139294 |
SRF No Treatment, replicate 1, array b Jurkat cells |
| GSM139295 |
SRF No Treatment, replicate 2, array a Jurkat cells |
| GSM139296 |
SRF No Treatment, replicate 2, array b Jurkat cells |
| GSM139297 |
SRF replicate a, array a, Be(2)-C cells |
| GSM139298 |
SRF replicate 1, array b, Be(2)-C cells |
| GSM139299 |
SRF replicate 2, array a, Be(2)-C cells |
| GSM139300 |
SRF replicate 2, array b, Be(2)-C cells |
| GSM139301 |
SRF replicate 3, array a, Be(2)-C cells |
| GSM139302 |
SRF replicate 3, array b, Be(2)-C cells |
| GSM139303 |
SRF replicate 1, array a, CRL-1999 cells |
| GSM139304 |
SRF replicate 1, array b, CRL-1999 cells |
| GSM139305 |
SRF replicate 2, array a, CRL-1999 cells |
| GSM139306 |
SRF replicate 2, array b, CRL-1999 cells |
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| Relations |
| BioProject |
PRJNA97491 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE5998_RAW.tar |
209.3 Mb |
(http)(custom) |
TAR (of TXT) |
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