2014
A new paradigm for transcription factor TFIIB functionality
Gelev V, Zabolotny JM, Lange M, Hiromura M, Yoo SW, Orlando JS, Kushnir A, Horikoshi N, Paquet E, Bachvarov D, Schaffer PA, Usheva A. A new paradigm for transcription factor TFIIB functionality. Scientific Reports 2014, 4: 3664. PMID: 24441171, PMCID: PMC3895905, DOI: 10.1038/srep03664.Peer-Reviewed Original ResearchMeSH KeywordsAcetylationAnimalsBinding SitesCell CycleCell LineDatasets as TopicGene ExpressionGene Expression ProfilingGene Expression RegulationGene Expression Regulation, ViralGene Knockdown TechniquesGene SilencingGenes, LethalGenome, HumanHerpesvirus 1, HumanHumansOrgan SpecificityProtein BindingRNA Polymerase IITranscription Factor TFIIBTranscription Initiation SiteTranscription, GeneticTranscriptomeConceptsTranscription initiationGene expressionGeneral transcription factor TFIIBTranscription factor TFIIBRNA polymerase IIGlobal gene expressionHuman gene expressionPolymerase IIGene transcriptionBioinformatics analysisBioinformatics studiesGene promoterHuman promotersCellular functionalityMitotic chromatidsTFIIBCell linesTranscriptionPromoterExpression
2012
DNA breathing dynamics distinguish binding from nonbinding consensus sites for transcription factor YY1 in cells
Alexandrov BS, Fukuyo Y, Lange M, Horikoshi N, Gelev V, Rasmussen KØ, Bishop AR, Usheva A. DNA breathing dynamics distinguish binding from nonbinding consensus sites for transcription factor YY1 in cells. Nucleic Acids Research 2012, 40: 10116-10123. PMID: 22904068, PMCID: PMC3488223, DOI: 10.1093/nar/gks758.Peer-Reviewed Original ResearchConceptsTranscription factorsGenome-wide mappingProtein-DNA bindingGene expression regulatorsEssential biological processesTranscription factor YY1DNA binding sitesDNA breathing dynamicsGenomic functionsYY1 bindingFactor YY1Expression regulatorsPhenotypic diversityConsensus sitesSequence variationGel shiftBiological processesCellular behaviorSequence contextFunctional SNPsYY1Strand separationBreathing dynamicsDNA dynamicsBinding sites