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Series GSE17454 Query DataSets for GSE17454
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.

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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.
Web link
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
Platforms (1)
GPL9309 Illumina Genome Analyzer (Caenorhabditis elegans)
Samples (3)
GSM435291 CEH-14 L2 replicate 1 GFP
GSM435292 CEH-14 L2 replicate 2 GFP
GSM435293 CEH-14 L2 replicate 2 Input
SRA SRP001580

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE17454_RAW.tar 213.7 Mb (http)(custom) TAR (of GFF, TXT)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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