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FusionSeq
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FusionSeq

FusionSeq is a tool for the identification of fusion transcript in RNA-seq data sets using paired-end reads. The FusionSeq includes functions to filter out spurious fusions caused by misalignment artifacts or random pairing. It ranks the candidate fusions using varied statistical methods.



FusionSeq

FusionSeq is a tool for the identification of fusion transcript in RNA-seq data sets using paired-end reads. The FusionSeq includes functions to filter out spurious fusions caused by misalignment artifacts or random pairing. It ranks the candidate fusions using varied statistical methods.

Topic

RNA-Seq; Gene structure

Details

  • Operation: Sequence alignment analysis
  • Software interface: Command-line user interface
  • Language: C
  • Operating system: Linux; Mac OS X
  • License: Not stated
    • Cost: Free
  • Version name: 0.6.1 / 0.7.0 apha
  • Credit: Yale University Biomedical High-Performance Computing Center, the National Institutes of Health (NIH), National Cancer Institute, National Human Genome Research Institute, the Prostate Cancer Foundation, the Breslin Foundation.
  • Contact: fusionseq-faq _at_ gersteinlab.org | andrea.sboner _at_ yale.edu | lukas.habegger _at_ yale.edu | Dorothee.Pflueger _at_ usz.ch | stt2010 _at_ med.cornell.edu | david.z.chen _at_ yale.edu | joel.rozowsky _at_ yale.edu | akt2002 _at_ med.cornell.edu | nak2011 _at_ med.cornell.edu | benjamin.moss _at_ tufts.edu | mchee _at_ prognosysbio.com | frd2004 _at_ med.cornell.edu | rubinma _at_ med.cornell.edu | asbmg _at_ gersteinlab.org
  • Collection: -

Publications

Sboner A, Habegger L, Pflueger D, Terry S, Chen DZ, Rozowsky JS, Tewari AK, Kitabayashi N, Moss BJ, Chee MS, Demichelis F, Rubin MA, Gerstein MB "FusionSeq: a modular framework for finding gene fusions by analyzing paired-end RNA-sequencing data." Genome Biol. 2010; 11(10):R104 https://doi.org/10.1186/gb-2010-11-10-r104
PMID: 20964841
PMCID: PMC3218660


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