GSE48735: Snyder_NHR-28_GFP_L1

Summary: modENCODE_submission_4024 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: OP317(official name : OP317 genotype : unc119(ed3);wgIs317(nhr-28::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 NHR-28::EGFP fusion protein is expressed in the correct nhr-28 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the NHR-28 transcription factor. made_by : R Waterston ); Developmental Stage: L1 26dC; Genotype: unc119(ed3);wgIs317(nhr-28::TY1 EGFP FLAG;unc119); Sex: Hermaphrodite; EXPERIMENTAL FACTORS: Developmental Stage L1 26dC; Target gene nhr-28; Strain OP317(official name : OP317 genotype : unc119(ed3);wgIs317(nhr-28::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 NHR-28::EGFP fusion protein is expressed in the correct nhr-28 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the NHR-28 transcription factor. made_by : R Waterston ); temp (temperature) 20 degree celsius

### 数据集摘要：modENCODE_submission_4024
本提交源自Michael Snyder主导的modENCODE项目。完整modENCODE项目列表请参见：http://www.genome.gov/26524648。
项目目标：本项目旨在鉴定秀丽隐杆线虫（Caenorhabditis elegans，C. elegans）中300种转录因子的DNA结合位点。每种转录因子基因均与同一绿色荧光蛋白（Green Fluorescent Protein，GFP）融合蛋白标签融合，以验证转基因动物中该基因的正确时空表达模式。研究人员使用抗GFP抗体对各菌株开展染色质免疫沉淀（Chromatin Immunoprecipitation，ChIP）实验，并采用Solexa GA2技术对结合的DNA进行深度测序。关于数据使用条款与条件，请参阅：http://www.genome.gov/27528022 及 http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf。

### 实验整体设计
**实验类型**：ChIP-seq
**生物样本来源**：
菌株：OP317（官方名称：OP317；基因型：unc119(ed3);wgIs317(nhr-28::TY1 EGFP FLAG;unc119)；回交次数：3次；诱变方式：基因轰击；标签：GFP::3xFlag）
菌株描述：该菌株的转基因载体由蒂宾根马克斯·普朗克细胞生物学研究所的Mihail Sarov利用Tony Hyman的重组工程流程构建。所得质粒用于unc-119(ed3)菌株的生物弹道转化。NHR-28::EGFP融合蛋白可按照nhr-28的天然时空表达模式进行表达。本菌株被用于ChIP-seq实验，以绘制NHR-28转录因子的体内结合位点。
构建者：R Waterston；发育阶段：L1期（26℃）；基因型：unc119(ed3);wgIs317(nhr-28::TY1 EGFP FLAG;unc119)；性别：雌雄同体

**实验因素**：
发育阶段：L1期；靶基因：nhr-28；菌株：OP317（官方名称：OP317；基因型：unc119(ed3);wgIs317(nhr-28::TY1 EGFP FLAG;unc119)；回交次数：3次；诱变方式：基因轰击；标签：GFP::3xFlag）
菌株描述：该菌株的转基因载体由蒂宾根马克斯·普朗克细胞生物学研究所的Mihail Sarov利用Tony Hyman的重组工程流程构建。所得质粒用于unc-119(ed3)菌株的生物弹道转化。NHR-28::EGFP融合蛋白可按照nhr-28的天然时空表达模式进行表达。本菌株被用于ChIP-seq实验，以绘制NHR-28转录因子的体内结合位点。
构建者：R Waterston；培养温度：20摄氏度