2024
Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships.
Kudron M, Gewirtzman L, Victorsen A, Lear B, Vafeados D, Gao J, Xu J, Samanta S, Frink E, Tran-Pearson A, Hyunh C, Hammonds A, Fisher W, Wall M, Wesseling G, Hernandez V, Lin Z, Kasparian M, White K, Allada R, Gerstein M, Hillier L, Celniker S, Reinke V, Waterston R. Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships. Genome Research 2024, gr.279037.124. PMID: 39438113, DOI: 10.1101/gr.279037.124.Peer-Reviewed Original ResearchHigh-occupancy targetC. elegans transcription factorsSingle cell RNA-seq dataRegulatory relationshipsTranscription factor (TFChromatin immunoprecipitation sequencing dataTF-target relationshipsChIP-seq dataConsensus sequence motifRNA-seq dataDrosophila melanogaster</i>Promote target gene expressionTarget gene expressionChIP-seqSequence motifsSequence dataRegulatory networksEvents in vivoStock CenterModel organismsTranscription factorsTF functionGene expressionBinding sitesCell types
2010
Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans
Niu W, Lu ZJ, Zhong M, Sarov M, Murray JI, Brdlik CM, Janette J, Chen C, Alves P, Preston E, Slightham C, Jiang L, Hyman AA, Kim SK, Waterston RH, Gerstein M, Snyder M, Reinke V. Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans. Genome Research 2010, 21: 245-254. PMID: 21177963, PMCID: PMC3032928, DOI: 10.1101/gr.114587.110.Peer-Reviewed Original ResearchConceptsTranscription factorsTarget genesGenome-wide ChIP-seqDevelopmental processesSequence-specific transcription factorsNon-coding RNA genesHigh-throughput DNA sequencingSelect target genesSingle transcription factorDiverse developmental stagesTranscript start siteCandidate gene targetsEgl-5Hox factorsVulval differentiationLin-39Caenorhabditis elegansTranscriptional networksRNA genesModENCODE consortiumChIP-seqChromatin immunoprecipitationDevelopmental programMab-5Regulatory networks