2018
The ModERN Resource: Genome-Wide Binding Profiles for Hundreds of Drosophila and Caenorhabditis elegans Transcription Factors
Kudron MM, Victorsen A, Gevirtzman L, Hillier LW, Fisher WW, Vafeados D, Kirkey M, Hammonds AS, Gersch J, Ammouri H, Wall ML, Moran J, Steffen D, Szynkarek M, Seabrook-Sturgis S, Jameel N, Kadaba M, Patton J, Terrell R, Corson M, Durham TJ, Park S, Samanta S, Han M, Xu J, Yan KK, Celniker SE, White KP, Ma L, Gerstein M, Reinke V, Waterston R. The ModERN Resource: Genome-Wide Binding Profiles for Hundreds of Drosophila and Caenorhabditis elegans Transcription Factors. Genetics 2018, 208: 937-949. PMID: 29284660, PMCID: PMC5844342, DOI: 10.1534/genetics.117.300657.Peer-Reviewed Original ResearchConceptsIndividual transcription factorsTranscription factorsModel organismsGenome-wide binding profilesMajor model organismsKey model organismDifferent transcription factorsTissue-specific patternsFly genomeWorm genomeChromatin immunoprecipitationStock CenterRegulatory pathwaysRegulatory sitesCaenorhabditisDrosophilaOrganismsGenomeBinding profileGenesModENCODESitesGFPImmunoprecipitationVast number
2012
A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells
Charos AE, Reed BD, Raha D, Szekely AM, Weissman SM, Snyder M. A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells. Genome Research 2012, 22: 1668-1679. PMID: 22955979, PMCID: PMC3431484, DOI: 10.1101/gr.127761.111.Peer-Reviewed Original ResearchMeSH KeywordsBinding SitesCarrier ProteinsChromatin ImmunoprecipitationCluster AnalysisGene Expression RegulationGene Regulatory NetworksHeat-Shock ProteinsHep G2 CellsHigh-Throughput Nucleotide SequencingHumansNucleotide MotifsPeroxisome Proliferator-Activated Receptor Gamma Coactivator 1-alphaProtein BindingProtein TransportTranscription FactorsTranscription, GeneticConceptsTranscription factorsGenome-wide binding sitesCombinatorial binding patternsHeat shock response pathwayIndividual transcription factorsTranscriptional regulatory networksDNA sequence motifsDifferent transcription factorsShock response pathwayHigh-throughput sequencingMetabolic gene expressionHepG2 cellsTF partnersTranscriptional dynamicsCellular processesChIP-seqSequence motifsRegulatory networksTranscriptional coactivatorResponse pathwaysInterdependent regulationTarget genesChromatin IPRegulatory codeGene expression
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