Genomics

Dataset Information

3

Identification of Transcription Factor PEB-1::GFP Binding Regions in L2


ABSTRACT: modENCODE_submission_3227 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. Chromatin immunoprecipitation on each strain is peformed using an anti-GFP antibody, and any bound DNA is deep-sequenced using Solexa GA2 technology. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf EXPERIMENT TYPE: CHIP-seq. BIOLOGICAL SOURCE: Strain: OP86(official name : OP86 genotype : unc119(ed3);wgIs86(peb-1::TY1 EGFP FLAG;unc119) outcross : 3 mutagen : Bombard tags : GFP::3xFlag description : This strain's transgene was constructed by Mihail Sarov at the Max Planck Institute for Cell Biology in Tubiginen using Tony Hyman's recombineering pipeline. The resulting plasmid was used for biolistic transformation of an unc-119(ed3) strain. The PEB-1::EGFP fusion protein is expressed in the correct peb-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the PEB-1 transcription factor. made_by : R Waterston ); Developmental Stage: L2; Genotype: unc119(ed3);wgIs86(peb-1::TY1 EGFP FLAG;unc119); Sex: Hermaphrodite; EXPERIMENTAL FACTORS: Developmental Stage L2; Target gene peb-1; Strain OP86(official name : OP86 genotype : unc119(ed3);wgIs86(peb-1::TY1 EGFP FLAG;unc119) outcross : 3 mutagen : Bombard tags : GFP::3xFlag description : This strain's transgene was constructed by Mihail Sarov at the Max Planck Institute for Cell Biology in Tubiginen using Tony Hyman's recombineering pipeline. The resulting plasmid was used for biolistic transformation of an unc-119(ed3) strain. The PEB-1::EGFP fusion protein is expressed in the correct peb-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the PEB-1 transcription factor. made_by : R Waterston ); temp (temperature) 20 degree celsius

ORGANISM(S): Caenorhabditis elegans  

SUBMITTER: Cindie Slightam   John Murray  Mark Gerstein  Robert Waterston  Ashish Agarwal  Stuart Kim  Valerie Reinke  DCC modENCODE  Judi Janette  Mei Zhong  Mihail Sarov  Debasish Raha  Mike Snyder  Anthony Hyman  Wei Niu 

PROVIDER: E-GEOD-48699 | ArrayExpress | 2013-07-11

SECONDARY ACCESSION(S): GSE48699

REPOSITORIES: GEO, ArrayExpress

Dataset's files

Source:
Action DRS
E-GEOD-48699.additional.1.zip Other
E-GEOD-48699.idf.txt Idf
E-GEOD-48699.processed.1.zip Processed
E-GEOD-48699.sdrf.txt Txt
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