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Ameur A, Wetterbom A, Feuk L, Gyllensten U
Genome Biol. 11 (3) R34 [2010-03-17; online 2010-03-17]
We have developed a new strategy for de novo prediction of splice junctions in short-read RNA-seq data, suitable for detection of novel splicing events and chimeric transcripts. When tested on mouse RNA-seq data, >31,000 splice events were predicted, of which 88% bridged between two regions separated by <or=100 kb, and 74% connected two exons of the same RefSeq gene. Our method also reports genomic rearrangements such as insertions and deletions.
NGI Uppsala (Uppsala Genome Center)
National Genomics Infrastructure
PubMed 20236510
DOI 10.1186/gb-2010-11-3-r34
Crossref 10.1186/gb-2010-11-3-r34
pii: gb-2010-11-3-r34
pmc: PMC2864574