Chip-Array 2: Integrating Multiple Omics Data to Construct Gene Regulatory Networks

dc.contributor.ISNI0000 0001 1707 1372 (Zhang, MQ)
dc.contributor.authorWang, Panwenen_US
dc.contributor.authorQin, Jingen_US
dc.contributor.authorQin, Yimingen_US
dc.contributor.authorZhu, Yunen_US
dc.contributor.authorWang, Lily Yanen_US
dc.contributor.authorLi, Mulin Junen_US
dc.contributor.authorZhang, Michael Q.en_US
dc.contributor.authorWang, Junwenen_US
dc.contributor.utdAuthorZhang, Michael Q.en_US
dc.date.accessioned2017-03-01T17:10:07Z
dc.date.available2017-03-01T17:10:07Z
dc.date.created2015-04-27en_US
dc.date.issued2015-04-27en_US
dc.description.abstractTranscription factors (TFs) play an important role in gene regulation. The interconnections among TFs, chromatin interactions, epigenetic marks and cisregulatory elements form a complex gene transcription apparatus. Our previous work, ChIP-Array, combined TF binding and transcriptome data to construct gene regulatory networks (GRNs). Here we present an enhanced version, ChIP-Array 2, to integrate additional types of omics data including long-range chromatin interaction, open chromatin region and histone modification data to dissect more comprehensive GRNs involving diverse regulatory components. Moreover, we substantially extended our motif database for human, mouse, rat, fruit fly, worm, yeast and Arabidopsis, and curated large amount of omics data for users to select as input or backend support. With ChIP-Array 2, we compiled a library containing regulatory networks of 18 TFs/chromatin modifiers in mouse embryonic stem cell (mESC). The web server and the mESC library are publicly free and accessible at http://jjwanglab.org/chip-array.en_US
dc.description.sponsorshipResearch Grants Council (781511M, 17121414M); National Natural Science Foundation (91229105); University of Hong Kong (201409176183).en_US
dc.identifier.bibliographicCitationWang, Panwen, Jing Qin, Yiming Qin, Yun Zhu, et al. 2015. "ChIP-Array 2: integrating multiple omics data to construct gene regulatory networks." Nucleic Acids Research 43(1), doi: 10.1093/nar/gkv398en_US
dc.identifier.issn0305-1048en_US
dc.identifier.issue1en_US
dc.identifier.urihttp://hdl.handle.net/10735.1/5317
dc.identifier.volume43en_US
dc.relation.urihttp://dx.doi.org/10.1093/nar/gkv398
dc.rightsCC BY 4.0 (Attribution)en_US
dc.rights©2015 The Authorsen_US
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en_US
dc.sourceNucleic Acids Research
dc.subjectChromatinen_US
dc.subjectHistonesen_US
dc.subjectPou5f1 protein, mouseen_US
dc.subjectTranscription factorsen_US
dc.subjectTranscriptomeen_US
dc.titleChip-Array 2: Integrating Multiple Omics Data to Construct Gene Regulatory Networksen_US
dc.type.genreArticleen_US

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