SOAPfuse: an algorithm for identifying fusion transcripts from paired-end RNA-Seq data
Authors:
Open Access
- 14 February 2013
- journal article
- method
- Published by Springer Nature in Genome Biology
- Vol. 14 (2) , 1-15
Abstract
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.Keywords
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