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dc.contributor.authorFuxman Bass, Juan I.en_US
dc.contributor.authorPons, Carlesen_US
dc.contributor.authorKozlowski, Lucieen_US
dc.contributor.authorReece‐Hoyes, John S.en_US
dc.contributor.authorShrestha, Shaleenen_US
dc.contributor.authorHoldorf, Amy D.en_US
dc.contributor.authorMori, Akihiroen_US
dc.contributor.authorMyers, Chad L.en_US
dc.contributor.authorWalhout, Alberta J.M.en_US
dc.date.accessioned2019-02-05T18:38:14Z
dc.date.available2019-02-05T18:38:14Z
dc.date.issued2016-10-24
dc.identifier.citationJIF Bass, C Pons, L Kozlowski, JS Reece‐Hoyes, S Shrestha, AD Holdorf, A Mori, CL Myers, AJM Walhout. 2016. "A gene‐centered C. elegans protein–DNA interaction network provides a framework for functional predictions." Molecular Systems Biology, Volume 12, Issue 10, pp. 884 - 884. https://doi.org/10.15252/msb.20167131
dc.identifier.issn1744-4292
dc.identifier.urihttps://hdl.handle.net/2144/33281
dc.description.abstractTranscription factors (TFs) play a central role in controlling spatiotemporal gene expression and the response to environmental cues. A comprehensive understanding of gene regulation requires integrating physical protein–DNA interactions (PDIs) with TF regulatory activity, expression patterns, and phenotypic data. Although great progress has been made in mapping PDIs using chromatin immunoprecipitation, these studies have only characterized ~10% of TFs in any metazoan species. The nematode C. elegans has been widely used to study gene regulation due to its compact genome with short regulatory sequences. Here, we delineated the largest gene‐centered metazoan PDI network to date by examining interactions between 90% of C. elegans TFs and 15% of gene promoters. We used this network as a backbone to predict TF binding sites for 77 TFs, two‐thirds of which are novel, as well as integrate gene expression, protein–protein interaction, and phenotypic data to predict regulatory and biological functions for multiple genes and TFs.en_US
dc.format.extentp. 884en_US
dc.language.isoen_US
dc.publisherEMBO Pressen_US
dc.relation.ispartofMolecular Systems Biology
dc.rightsAttribution 4.0 Internationalen_US
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectC. elegansen_US
dc.subjectScience & technologyen_US
dc.subjectLife sciences & biomedicineen_US
dc.subjectBiochemistry & molecular biologyen_US
dc.subjectGene regulationen_US
dc.subjectProtein-DNA interaction networken_US
dc.subjectTranscription factorsen_US
dc.subjectYeast one-hybrid assaysen_US
dc.subjectX-chromosomeen_US
dc.subjectGenomeen_US
dc.subjectDrosophilaen_US
dc.subjectAnimalsen_US
dc.subjectBinding sitesen_US
dc.subjectCaenorhabditis elegansen_US
dc.subjectCaenorhabditis elegans proteinsen_US
dc.subjectGene expression regulationen_US
dc.subjectProtein bindingen_US
dc.subjectProtein interaction mapsen_US
dc.subjectRNA, messengeren_US
dc.subjectRNA, protozoanen_US
dc.subjectBioinformaticsen_US
dc.titleA gene‐centered C. elegans protein–DNA interaction network provides a framework for functional predictionsen_US
dc.typeArticleen_US
dc.description.versionPublished versionen_US
dc.identifier.doi10.15252/msb.20167131
pubs.elements-sourcemanual-entryen_US
pubs.notesPMID: 27777270 PMCID: PMC5081483en_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
pubs.publication-statusPublisheden_US


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