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| Status |
Public on Jul 31, 2009 |
| Title |
Identification of transcription factor CEH-14 binding sites in C.elegans |
| Project |
modENCODE
|
| Organism |
Caenorhabditis elegans |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We, being members of modENCODE consortium, have established an experimetal pipeline in C.elegans that allows global identification of the binding sites for transcription factors using chromatin immunoprecipitation followed by illumina high-throughput sequencing (ChIP-seq). In current study, we identified the binding sites for CEH-14 at L2 stage, which is required for specification of the AFD thermosensory neurons and for normal thermotactic behavior.
For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
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| Overall design |
CEH-14 was tagged with a dual GFP:3xFLAG tag at the carboxy terminus, whose expression pattern was confirmed through both fluorescence imaging and immunoblot analysis. The binding sites were determined using ChIP-seq. Two biological replicates were used in this study, but replicate1 is at a later L2 stage. Only one Input sample (non-immunoprecipitated chromatin (input) from replicate2 was used as a control. The concordance between two replicates is just above 50% when p-value is 0.05.
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| Web link |
http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
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| Contributor(s) |
Niu W |
| Citation(s) |
21177963 |
| BioProject |
PRJNA63461 |
| |
| Submission date |
Jul 31, 2009 |
| Last update date |
May 15, 2019 |
| Contact name |
Flora Vaccarino |
| Organization name |
Yale University
|
| Department |
Child Study Center
|
| Lab |
Vaccarino
|
| Street address |
230 South Frontage Road
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06520 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL9309 |
Illumina Genome Analyzer (Caenorhabditis elegans) |
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| Samples (3) |
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| Relations |
| SRA |
SRP001580 |
