RNA-seq from L4 animals treated with RNAi against gfp (control), ham-3, and swsn-2.2
Ontology highlight
ABSTRACT:
ORGANISM(S): Caenorhabditis elegans
PROVIDER: GSE75703 | GEO | 2016/02/01
SECONDARY ACCESSION(S): PRJNA305104
REPOSITORIES: GEO
Similar Datasets
Project description:modENCODE_submission_3842 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: OP102(official name : OP102 genotype : unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)) outcross : 0 mutagen : None 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 HAM-1::EGFP fusion protein is expressed in the correct ham-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the HAM-1 transcription factor. made_by : R Waterston ); Developmental Stage: L4; Genotype: unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)); Sex: Hermaphrodite; EXPERIMENTAL FACTORS: Developmental Stage L4; Target gene ham-1; Strain OP102(official name : OP102 genotype : unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)) outcross : 0 mutagen : None 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 HAM-1::EGFP fusion protein is expressed in the correct ham-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the HAM-1 transcription factor. made_by : R Waterston ); temp (temperature) 20 degree celsius
2013-07-11 | E-GEOD-48713 | biostudies-arrayexpress
Project description:RNA-seq from L4 animals treated with RNAi against gfp (control), ham-3, and swsn-2.2
| PRJNA305104 | ENA
Project description:Intestine-specific transcriptome of wild-type. gas-1(fc21) and gas-1(fc21); cest-2.2 OE Caenorhaditis elegans in order to gain insight into how cest-2.2 overexpression ameliorates Complex I deficiency
2021-10-01 | GSE168501 | GEO
Project description:modENCODE_submission_3152 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: OP102(official name : OP102 genotype : unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)) outcross : 0 mutagen : None 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 HAM-1::EGFP fusion protein is expressed in the correct ham-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the HAM-1 transcription factor. made_by : R Waterston ); Developmental Stage: fed L1; Genotype: unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)); Sex: Hermaphrodite; EXPERIMENTAL FACTORS: Developmental Stage fed L1; Target gene ham-1; Strain OP102(official name : OP102 genotype : unc-119 (ed3); wgIs102 (ham-1::TY1 EGFP FLAG; unc-119(+)) outcross : 0 mutagen : None 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 HAM-1::EGFP fusion protein is expressed in the correct ham-1 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the HAM-1 transcription factor. made_by : R Waterston ); temp (temperature) 20 degree celsius
2013-07-11 | E-GEOD-48693 | biostudies-arrayexpress
Project description:Caenorhabditis elegans swsn-2.2, SWIB domain-containing protein [Source:UniProtKB/TrEMBL;Acc:O02101], is differentially expressed in 3 experiment(s);
| WBGene00015971 | ExpressionAtlas
Project description:Caenorhabditis elegans swsn-2.2, SWIB domain-containing protein [Source:UniProtKB/TrEMBL;Acc:O02101], is expressed in 1 baseline experiment(s);
| WBGene00015971 | ExpressionAtlas
Project description:The goal of this study was to identify genes that were expressed in the protonephridial system. Because Six1/2(RNAi) and POU2/3(RNAi) animals lose the tubules, flame cells and accessory cells, these animals were expected to show decreased levels of the genes expressed in the nephridial system relative to control RNAi animals.
2011-11-28 | GSE31618 | GEO
Project description:modENCODE_submission_3842 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
2013-07-11 | GSE48713 | GEO
Project description:Drosophila melanogaster ham, hamlet, is differentially expressed in 15 experiment(s);
| FBgn0045852 | ExpressionAtlas
Project description:Drosophila melanogaster ham, hamlet, is expressed in 5 baseline experiment(s);
| FBgn0045852 | ExpressionAtlas