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ChimerDB 2.0 A knowledgebase for fusion genes updated

Title
ChimerDB 2.0 A knowledgebase for fusion genes updated
Authors
Kim P.Yoon S.Kim N.Lee S.Ko M.Lee H.Kang H.Kim J.
Ewha Authors
이상혁김재상
SCOPUS Author ID
이상혁scopus; 김재상scopus
Issue Date
2010
Journal Title
Nucleic Acids Research
ISSN
0305-1048JCR Link
Citation
vol. 38, no. SUPPL.1, pp. D81 - D85
Indexed
SCI; SCIE; SCOPUS WOS scopus
Abstract
Chromosome translocations and gene fusions are frequent events in the human genome and have been found to cause diverse types of tumor. ChimerDB is a knowledgebase of fusion genes identified from bioinformatics analysis of transcript sequences in the GenBank and various other public resources such as the Sanger cancer genome project (CGP), OMIM, PubMed and the Mitelman's database. In this updated version, we significantly modified the algorithm of identifying fusion transcripts. Specifically, the new algorithm is more sensitive and has detected 2699 fusion transcripts with high confidence. Furthermore, it can identify interchromosomal translocations as well as the intrachromosomal deletions or inversions of large DNA segments. Importantly, results from the analysis of next-generation sequencing data in the short read archives are incorporated as well. We updated and integrated all contents (GenBank, Sanger CGP, OMIM, PubMed publications and the Mitelman's database), and the user-interface has been improved to support diverse types of searches and to enhance the user convenience especially in browsing PubMed articles. We also developed a new alignment viewer that should facilitate examining reliability of fusion transcripts and inferring functional significance. We expect ChimerDB 2.0, available at http://ercsb.ewha.ac.kr/fusiongene, to be a valuable tool in identifying biomarkers and drug targets. © The Author(s) 2009. Published by Oxford University Press.
DOI
10.1093/nar/gkp982
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자연과학대학 > 생명과학전공 > Journal papers
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