HTRIdb: an open-access database for experimentally verified human transcriptional regulation interactions

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dc.contributor.authorBovolenta, Luiz A. [UNESP]
dc.contributor.authorAcencio, Marcio Luis [UNESP]
dc.contributor.authorLemke, Ney [UNESP]
dc.contributor.institutionUniversidade Estadual Paulista (Unesp)
dc.date.accessioned2014-05-20T13:49:41Z
dc.date.available2014-05-20T13:49:41Z
dc.date.issued2012-08-17
dc.description.abstractBackground: The modeling of interactions among transcription factors (TFs) and their respective target genes (TGs) into transcriptional regulatory networks is important for the complete understanding of regulation of biological processes. In the case of experimentally verified human TF-TG interactions, there is no database at present that explicitly provides such information even though many databases containing human TF-TG interaction data have been available. In an effort to provide researchers with a repository of experimentally verified human TF-TG interactions from which such interactions can be directly extracted, we present here the Human Transcriptional Regulation Interactions database (HTRIdb).Description: The HTRIdb is an open-access database that can be searched via a user-friendly web interface and the retrieved TF-TG interactions data and the associated protein-protein interactions can be downloaded or interactively visualized as a network through the web version of the popular Cytoscape visualization tool, the Cytoscape Web. Moreover, users can improve the database quality by uploading their own interactions and indicating inconsistencies in the data. So far, HTRIdb has been populated with 284 TFs that regulate 18302 genes, totaling 51871 TF-TG interactions. HTRIdb is freely available at http://www.lbbc.ibb.unesp.br/htri.Conclusions: HTRIdb is a powerful user-friendly tool from which human experimentally validated TF-TG interactions can be easily extracted and used to construct transcriptional regulation interaction networks enabling researchers to decipher the regulation of biological processes.en
dc.description.affiliationUniv Estadual Paulista, UNESP, Inst Biociencias Botucatu, Dept Fis & Biofis, BR-18618970 São Paulo, Brazil
dc.description.affiliationUnespUniv Estadual Paulista, UNESP, Inst Biociencias Botucatu, Dept Fis & Biofis, BR-18618970 São Paulo, Brazil
dc.description.sponsorshipFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.description.sponsorshipConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)
dc.description.sponsorshipIdFAPESP: 09/10382-2
dc.description.sponsorshipIdFAPESP: 10/20684-3
dc.format.extent10
dc.identifierhttp://dx.doi.org/10.1186/1471-2164-13-405
dc.identifier.citationBmc Genomics. London: Biomed Central Ltd., v. 13, p. 10, 2012.
dc.identifier.doi10.1186/1471-2164-13-405
dc.identifier.fileWOS000309928200001.pdf
dc.identifier.issn1471-2164
dc.identifier.lattes7977035910952141
dc.identifier.urihttp://hdl.handle.net/11449/17712
dc.identifier.wosWOS:000309928200001
dc.language.isoeng
dc.publisherBiomed Central Ltd.
dc.relation.ispartofBMC Genomics
dc.relation.ispartofjcr3.730
dc.relation.ispartofsjr2,110
dc.rights.accessRightsAcesso aberto
dc.sourceWeb of Science
dc.titleHTRIdb: an open-access database for experimentally verified human transcriptional regulation interactionsen
dc.typeArtigo
dcterms.licensehttp://www.biomedcentral.com/about/license
dcterms.rightsHolderBiomed Central Ltd.
unesp.author.lattes7977035910952141
unesp.author.orcid0000-0001-7463-4303[3]
unesp.author.orcid0000-0002-8278-240X[2]
unesp.campusUniversidade Estadual Paulista (Unesp), Instituto de Biociências, Botucatupt

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Artigos - Física e Biofísica - IBB