2016
Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators
van Dijk D, Sharon E, Lotan-Pompan M, Weinberger A, Segal E, Carey LB. Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators. Genome Research 2016, 27: 87-94. PMID: 27965290, PMCID: PMC5204347, DOI: 10.1101/gr.212316.116.Peer-Reviewed Original ResearchConceptsTranscription factorsGene regulatory logicPromoter DNA sequencesGene expression outputActive transcription factorTarget gene expressionGene expression profilesMaximum promoter activityTranscriptional activatorExpression outputRegulatory logicDNA sequencesGene expressionPromoter activityIntracellular signalsExpression profilesTF moleculesActivity of thousandsActivator siteLocal poolAbsolute expressionTF concentrationPromoterKey mediatorExpression
2013
Promoter Sequence Determines the Relationship between Expression Level and Noise
Carey LB, van Dijk D, Sloot PM, Kaandorp JA, Segal E. Promoter Sequence Determines the Relationship between Expression Level and Noise. PLOS Biology 2013, 11: e1001528. PMID: 23565060, PMCID: PMC3614515, DOI: 10.1371/journal.pbio.1001528.Peer-Reviewed Original ResearchMeSH KeywordsAlcohol DehydrogenaseBacterial ProteinsBase SequenceBinding SitesCation Transport ProteinsEnzyme InductionGene ExpressionGene Expression Regulation, FungalGene LibraryGenes, ReporterKineticsLuminescent ProteinsModels, GeneticPromoter Regions, GeneticProtein BindingSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsTranscription FactorsConceptsTranscriptional burstsUnique transcriptional statesTranscription factor activitySingle target geneExpression levelsMechanism of repressionAbility of cellsTF activityGene expression levelsExtracellular cuesTranscriptional statesTranscriptional regulationPromoter DNAPromoter sequencesSingle TFCell variabilityTarget genesRegulatory mechanismsExpression changesZap1Diverse mechanismsNative targetsFactor activityExpression increasesGenes