ChimerDB 4.0: an updated and expanded database of fusion genes

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dc.contributor.authorY E Jang-
dc.contributor.authorInsu Jang-
dc.contributor.authorS Kim-
dc.contributor.authorS Cho-
dc.contributor.authorD Kim-
dc.contributor.authorK Kim-
dc.contributor.authorJ Kim-
dc.contributor.authorJ Hwang-
dc.contributor.authorS Kim-
dc.contributor.authorJ Kim-
dc.contributor.authorJ Kang-
dc.contributor.authorByunguk Lee-
dc.contributor.authorS Lee-
dc.date.accessioned2020-02-07T16:30:59Z-
dc.date.available2020-02-07T16:30:59Z-
dc.date.issued2020-
dc.identifier.issn03051048-
dc.identifier.uri10.1093/nar/gkz1013ko
dc.identifier.urihttps://oak.kribb.re.kr/handle/201005/19266-
dc.description.abstractFusion genes represent an important class of biomarkers and therapeutic targets in cancer. ChimerDB is a comprehensive database of fusion genes encompassing analysis of deep sequencing data (ChimerSeq) and text mining of publications (ChimerPub) with extensive manual annotations (ChimerKB). In this update, we present all three modules substantially enhanced by incorporating the recent flood of deep sequencing data and related publications. ChimerSeq now covers all 10 565 patients in the TCGA project, with compilation of computational results from two reliable programs of STAR-Fusion and FusionScan with several public resources. In sum, ChimerSeq includes 65 945 fusion candidates, 21 106 of which were predicted by multiple programs (ChimerSeq-Plus). ChimerPub has been upgraded by applying a deep learning method for text mining followed by extensive manual curation, which yielded 1257 fusion genes including 777 cases with experimental supports (ChimerPub-Plus). ChimerKB includes 1597 fusion genes with publication support, experimental evidences and breakpoint information. Importantly, we implemented several new features to aid estimation of functional significance, including the fusion structure viewer with domain information, gene expression plot of fusion positive versus negative patients and a STRING network viewer. The user interface also was greatly enhanced by applying responsive web design. ChimerDB 4.0 is available at http://www.kobic.re.kr/chimerdb/.-
dc.publisherOxford Univ Press-
dc.titleChimerDB 4.0: an updated and expanded database of fusion genes-
dc.title.alternativeChimerDB 4.0: an updated and expanded database of fusion genes-
dc.typeArticle-
dc.citation.titleNucleic Acids Research-
dc.citation.numberD-
dc.citation.endPageD824-
dc.citation.startPageD817-
dc.citation.volume48-
dc.contributor.affiliatedAuthorInsu Jang-
dc.contributor.affiliatedAuthorByunguk Lee-
dc.contributor.alternativeName장예은-
dc.contributor.alternativeName장인수-
dc.contributor.alternativeName김선규-
dc.contributor.alternativeName조수빈-
dc.contributor.alternativeName김대한-
dc.contributor.alternativeName김권우-
dc.contributor.alternativeName김재원-
dc.contributor.alternativeName황지민-
dc.contributor.alternativeName김상옥-
dc.contributor.alternativeName김재상-
dc.contributor.alternativeName강재우-
dc.contributor.alternativeName이병욱-
dc.contributor.alternativeName이상혁-
dc.identifier.bibliographicCitationNucleic Acids Research, vol. 48, no. D, pp. D817-D824-
dc.identifier.doi10.1093/nar/gkz1013-
dc.description.journalClassY-
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Korea Bioinformation Center > 1. Journal Articles
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