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dc.contributor.authorFuxman Bass, Juan I.en_US
dc.contributor.authorTamburino, Alex M.en_US
dc.contributor.authorMori, Akihiroen_US
dc.contributor.authorBeittel, Nathanen_US
dc.contributor.authorWeirauch, Matthew T.en_US
dc.contributor.authorReece-Hoyes, John S.en_US
dc.contributor.authorWalhout, Alberta J. M.en_US
dc.date.accessioned2019-02-05T19:16:27Z
dc.date.available2019-02-05T19:16:27Z
dc.date.issued2013
dc.identifier.citationJIF Bass, AM Tamburino, A Mori, N Beittel, MT Weirauch, JS Reece-Hoyes, AJM Walhout. 2013. "Transcription factor binding to Caenorhabditis elegans first introns reveals lack of redundancy with gene promoters." Nucleic acids research, pp. 153-162. 10.1093/nar/gkt858
dc.identifier.issn0305-1048
dc.identifier.urihttps://hdl.handle.net/2144/33282
dc.description.abstractGene expression is controlled through the binding of transcription factors (TFs) to regulatory genomic regions. First introns are longer than other introns in multiple eukaryotic species and are under selective constraint. Here we explore the importance of first introns in TF binding in the nematode Caenorhabditis elegans by combining computational predictions and experimentally derived TF-DNA interaction data. We found that first introns of C. elegans genes, particularly those for families enriched in long first introns, are more conserved in length, have more conserved predicted TF interactions and are bound by more TFs than other introns. We detected a significant positive correlation between first intron size and the number of TF interactions obtained from chromatin immunoprecipitation assays or determined by yeast one-hybrid assays. TFs that bind first introns are largely different from those binding promoters, suggesting that the different interactions are complementary rather than redundant. By combining first intron and promoter interactions, we found that genes that share a large fraction of TF interactions are more likely to be co-expressed than when only TF interactions with promoters are considered. Altogether, our data suggest that C. elegans gene regulation may be additive through the combined effects of multiple regulatory regions.en_US
dc.format.extentp. 153-162en_US
dc.publisherOxford University Pressen_US
dc.relation.ispartofNucleic acids research
dc.rightsAttribution 4.0 Internationalen_US
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectScience & technologyen_US
dc.subjectLife sciences & biomedicineen_US
dc.subjectBiochemistry & molecular biologyen_US
dc.subjectDNA interaction networken_US
dc.subjectDrosophila genomesen_US
dc.subjectOne-hybrid assaysen_US
dc.subjectC. elegansen_US
dc.subjectRegulatory networken_US
dc.subjectProtein-DNAen_US
dc.subjectIntegrative analysisen_US
dc.subjectIn-vivoen_US
dc.subjectExpressionen_US
dc.subjectElementsen_US
dc.subjectAnimalsen_US
dc.subjectCaenorhabditis elegansen_US
dc.subjectGene expression regulationen_US
dc.subjectGene regulatory networksen_US
dc.subjectIntronsen_US
dc.subjectMultigene familyen_US
dc.subjectPromoter regions, geneticen_US
dc.subjectTranscription factorsen_US
dc.subjectEnvironmental sciencesen_US
dc.subjectBiological sciencesen_US
dc.subjectInformation and computing sciencesen_US
dc.subjectDevelopmental biologyen_US
dc.titleTranscription factor binding to Caenorhabditis elegans first introns reveals lack of redundancy with gene promotersen_US
dc.typeArticleen_US
dc.description.versionPublished versionen_US
dc.identifier.doi10.1093/nar/gkt858
pubs.elements-sourcemanual-entryen_US
pubs.notesEmbargo: Not knownen_US
pubs.organisational-groupBoston Universityen_US
pubs.organisational-groupBoston University, College of Arts & Sciencesen_US
pubs.organisational-groupBoston University, College of Arts & Sciences, Department of Biologyen_US


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Attribution 4.0 International
Except where otherwise noted, this item's license is described as Attribution 4.0 International