Journal
GENOME BIOLOGY
Volume 14, Issue 2, Pages -Publisher
BMC
DOI: 10.1186/gb-2013-14-2-r12
Keywords
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Funding
- National Basic Research Program of China (973 program) [2011CB809200]
- National High Technology Research and Development Program of China (863 Program) [2012AA02A201]
- Shenzhen municipal government of China
- local government of the Yantian District of Shenzhen
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We have developed a new method, SOAPfuse, to identify fusion transcripts from paired-end RNA-Seq data. SOAPfuse applies an improved partial exhaustion algorithm to construct a library of fusion junction sequences, which can be used to efficiently identify fusion events, and employs a series of filters to nominate high-confidence fusion transcripts. Compared with other released tools, SOAPfuse achieves higher detection efficiency and consumed less computing resources. We applied SOAPfuse to RNA-Seq data from two bladder cancer cell lines, and confirmed 15 fusion transcripts, including several novel events common to both cell lines. SOAPfuse is available at http://soap.genomics.org.cn/soapfuse.html.
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