Flow Documentation

Partek Flow Documentation

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Numbered figure captions
SubtitleTextInvoking Partek fusion gene algorithm via Detect fusion genes link
AnchorNameDetect fusion genes link

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First, the genome build that should be used for fusion gene detection needs to be specified (Figure 2).

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SubtitleTextFusion attribute report of STAR’s chimeric alignment algorithm. Each row represents a fusion gene candidate (the example shows comparison of number of fusion reads detected in ER– group vs. ER+ group, with the p-value based on χ2 test)
AnchorNameFusion attribute report

 

References1

  1. Annala MJ, Parker BC, Zhang W, Nykter M. Fusion genes and their discovery using high throughput sequencing. Cancer Lett. 2013;340:192-200.
    1. Costa V, Aprile M, Esposito R, Ciccodicola A. RNA-Seq and human complex diseases: recent accomplishments and future perspectives. Eur J Hum Genet. 2013;21:134-142.
    2. Kim D, Salzberg SL. TopHat-Fusion: an algorithm for discovery of novel fusion transcripts. Genome Biology. 2011;12:R72
    3. TopHat-Fusion. An algorithm for discovery of novel fusion transcripts. http:// http://tophat.cbcb.umd.edu/fusion_index.html Accessed on April 25, 2014
    4. Dobin A, Davies CA, Schlesinger F et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29:15-21.

 

 
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