RNA-seq is a powerful new technology that allows detection of new RNA molecules, including potentially new biomarkers. For various analysis applications of such data, new or better solutions are needed. Because there is a lack of diagnostic / prognostic biomarkers for prostate cancer, one of the most common types of cancer in men, prostate cancer is an ideal model system for the development of new analysis methods.
We developed new computational methods, to improve detection of fusion genes and small ncRNAs, and demonstrate how these methods can be used to find prostate cancer specific transcripts. All proposed methods were ultimately integrated into the Galaxy RNA workbench that has been made available to other researchers, free of charge.

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G.W. Jenster (Guido) , P.J. van der Spek (Peter) , A.P. Stubbs (Andrew) , E.S. Martens-Uzunova (Elena)
Erasmus University Rotterdam
Department of Bioinformatics