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SOAPfusion | A computational fusion discovery tool for RNA-seq reads

Allows fusion discovery with paired-end RNA-Seq reads. SOAPfusion identifies fusion transcripts with RNA-Seq reads. The software integrates a specially designed SOAPfusion-aligner to perform both intact alignment and two-segmental alignment and enables discovery of fusion transcripts at single-base resolution. With a masking strategy on the reference genome and retention of reliable multiple mappings to report fusions, it provides a proper to make better use of multiple mapping results.

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SOAPfusion classification

SOAPfusion specifications

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SOAPfusion distribution


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SOAPfusion support


  • SOAP3 <>
  • Siu-Ming Yiu <>


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Department of Computer Science, The University of Hong Kong, Hong Kong, China; BGI-Shenzhen, Shenzhen, China; Department of Biology, University of Copenhagen, Copenhagen, Denmark; King Abdulaziz University, Jeddah, Saudi Arabia; The Novo NordiskFoundation Center for Basic Metabolic Research, University of Copenhagen and Guangzhou Key Laboratory of Cancer Trans-Omics Research, BGI-Guangzhou, Guangzhou, China

Funding source(s)

Supported by Guangdong Innovative Research Team Program [2009010016] and General
Research Fund of the Hong Kong Government [HKU 719611E and HKU719709E].

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