Flow Documentation

Partek Flow Documentation

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SubtitleTextChimeric results node as a result of STAR’s chimeric alignment algorithm
AnchorNameChimeric results node

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Selecting the Chimeric results node opens the toolbox task menu (Figure 13) with twooptions: Data summary report or Download data.

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SubtitleTextChimeric results section of the toolbox, invokable on STAR’s chimeric alignment results (data size is an example)
AnchorNameVariant detection options

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Clicking on the Download data results in download of a .fusion file to the local computer. The file is human readible readable and can be opened in a text editor (example in Figure 14). For details refer to STAR's documentation.

 

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SubtitleTextSTAR's .fusion file opened in a text editor (example)
AnchorNamefusion file

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References

  1. Annala MJ, Parker BC, Zhang W, Nykter M. Fusion genes and their discovery using high throughput sequencing. Cancer Lett. 2013;340:192-200.
  2. 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.
  3. Kim D, Salzberg SL. TopHat-Fusion: an algorithm for discovery of novel fusion transcripts. Genome Biology. 2011;12:R72
  4. TopHat-Fusion. An algorithm for discovery of novel fusion transcripts. http:// http://tophat.cbcb.umd.edu/fusion_index.html Accessed on April 25, 2014
  5. Dobin A, Davies CA, Schlesinger F et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29:15-21.

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