21835007
This reference describes TopHat-Fusion.
| PMID | PMID 21835007 |
|---|---|
| Title | TopHat-Fusion: an algorithm for discovery of novel fusion transcripts. |
| Year | 2011 |
| Journal | Genome Biology |
| Author | Kim D, Salzberg SL. |
| Volume | |
| Start page |
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Full text description
TopHat-Fusion is an algorithm designed to discover transcripts representing fusion gene products, which result from the breakage and re-joining of two different chromosomes, or from rearrangements within a chromosome. TopHat-Fusion is an enhanced version of TopHat, an efficient program that aligns RNA-seq reads without relying on existing annotation. Because it is independent of gene annotation, TopHat-Fusion can discover fusion products deriving from known genes, unknown genes and unannotated splice variants of known genes. Using RNA-seq data from breast and prostate cancer cell lines, we detected both previously reported and novel fusions with solid supporting evidence. TopHat-Fusion is available at http://tophat-fusion.sourceforge.net/.
