TY - JOUR T1 - JAFFA: High sensitivity transcriptome-focused fusion gene detection JF - bioRxiv DO - 10.1101/013698 SP - 013698 AU - Nadia M. Davidson AU - Ian J. Majewski AU - Alicia Oshlack Y1 - 2015/01/01 UR - http://biorxiv.org/content/early/2015/01/23/013698.abstract N2 - Genomic instability is a hallmark of cancer and, as such, structural alterations and fusion genes are common events in the cancer landscape. RNA sequencing (RNA-Seq) is a powerful method for profiling cancers, but current methods for identifying fusion genes are optimized for short reads. JAFFA (https://code.google.com/p/jaffa-project/) is a sensitive fusion detection method that clearly out-performs other methods with reads of 100bp or greater. JAFFA compares a cancer transcriptome to the reference transcriptome, rather than the genome, where the cancer transcriptome is inferred using long reads directly or by de novo assembling short reads. ER -