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. 2012 Jul 15;28(14):1923-4.
doi: 10.1093/bioinformatics/bts272. Epub 2012 May 4.

BreakFusion: targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing data

Ken Chen  1 , John W Wallis, Cyriac Kandoth, Joelle M Kalicki-Veizer, Karen L Mungall, Andrew J Mungall, Steven J Jones, Marco A Marra, Timothy J Ley, Elaine R Mardis, Richard K Wilson, John N Weinstein, Li Ding
Affiliations

BreakFusion: targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing data

Ken Chen et al. Bioinformatics. .

Abstract

Despite recent progress, computational tools that identify gene fusions from next-generation whole transcriptome sequencing data are often limited in accuracy and scalability. Here, we present a software package, BreakFusion that combines the strength of reference alignment followed by read-pair analysis and de novo assembly to achieve a good balance in sensitivity, specificity and computational efficiency.

Availability: http://bioinformatics.mdanderson.org/main/BreakFusion

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Figures

Fig. 1.
Fig. 1.
BreakFusion overview
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