2014
Probing the effect of promoters on noise in gene expression using thousands of designed sequences
Sharon E, van Dijk D, Kalma Y, Keren L, Manor O, Yakhini Z, Segal E. Probing the effect of promoters on noise in gene expression using thousands of designed sequences. Genome Research 2014, 24: 1698-1706. PMID: 25030889, PMCID: PMC4199362, DOI: 10.1101/gr.168773.113.Peer-Reviewed Original ResearchMeSH KeywordsBinding SitesComputational BiologyDNAGene ExpressionGenes, FungalLinear ModelsMolecular Sequence DataPromoter Regions, GeneticSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsTranscription FactorsConceptsExpression noiseGene expressionMean expression levelTranscription factorsPromoter sequencesExpression levelsGene expression noisePromoter DNA sequencesMore transcription factorsNucleosome-disfavoring sequencesHigher expression noiseDifferent promoter sequencesNonspecific DNA bindingOne-dimensional slidingCellular functionsHigh-throughput methodNative promoterDNA sequencesDNA bindingSynthetic promotersPromoterIdentical cellsTarget siteSequence
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