SRP018558 GSE44009 GSE44009 GSE44009: Identification of Transcription Factor ZK377.2::GFP Binding Regions in L1 GSE44009: Identification of Transcription Factor ZK377.2::GFP Binding Regions in L1 Summary: modENCODE_submission_3590 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 Overall Design: EXPERIMENT TYPE: CHIP-seq. BIOLOGICAL SOURCE: Strain: OP355(official name : OP355 genotype : unc-119(ed3) III; wgIs355(ZK377.2::TY1 EGFP FLAG; unc-119(+)) 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 Dresden using Tony Hyman's recombineering pipeline. The resulting plasmid was used for biolistic transformation of an unc-119(ed3) strain. The sax-3::EGFP fusion protein is expressed in the correct sax-3 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the sax-3 transcription factor. The sax-3 gene is encoded by the ZK377.2 CDS. made_by : R Waterston ); Developmental Stage: fed L1; Genotype: unc-119(ed3) III; wgIs355(ZK377.2::TY1 EGFP FLAG; unc-119(+)); Sex: Hermaphrodite; EXPERIMENTAL FACTORS: Developmental Stage fed L1; Target gene sax-3; Strain OP355(official name : OP355 genotype : unc-119(ed3) III; wgIs355(ZK377.2::TY1 EGFP FLAG; unc-119(+)) 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 Dresden using Tony Hyman's recombineering pipeline. The resulting plasmid was used for biolistic transformation of an unc-119(ed3) strain. The sax-3::EGFP fusion protein is expressed in the correct sax-3 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the sax-3 transcription factor. The sax-3 gene is encoded by the ZK377.2 CDS. made_by : R Waterston ); temp (temperature) 20 degree celsius gds 200044009 GEO Web Link http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE44009 Project Contact Name = DCC,,modENCODE; Email = help@modencode.org; Laboratory = modENCODE DCC; Institute = Ontario Institute for Cancer Research; Address = MaRS Centre, South Tower, 101 College Street, Suite 800; City = Toronto; Zip/Postal Code = M5G 0A3; Country = Canada; Phone = 416-673-8579; Web Link = www.modencode.org; Project Contributor Anthony,,Hyman Project Contributor Ashish,,Agarwal Project Contributor Cindie,,Slightam Project Contributor Debasish,,Raha Project Contributor John,,Murray Project Contributor Judi,,Janette Project Contributor Mark,,Gerstein Project Contributor Mei,,Zhong Project Contributor Mihail,,Sarov Project Contributor Mike,,Snyder Project Contributor Robert,,Waterston Project Contributor Stuart,,Kim Project Contributor Valerie,,Reinke Project Contributor Wei,,Niu