ChimerDB 2.0-a knowledgebase for fusion genes updated = ChimerDB 2.0-fusion genes 지식사이트 업데이트

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Title
ChimerDB 2.0-a knowledgebase for fusion genes updated = ChimerDB 2.0-fusion genes 지식사이트 업데이트
Author(s)
P Kim; S Yoon; Namshin Kim; S Lee; M Ko; H Lee; H Kang; J Kim; S Lee
Bibliographic Citation
Nucleic Acids Research, vol. 38, no. D, pp. D81-D85
Publication Year
2010
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.
ISSN
0305-1048
Publisher
Oxford Univ Press
DOI
http://dx.doi.org/10.1093/nar/gkp982
Type
Article
Appears in Collections:
1. Journal Articles > Journal Articles
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