TopHat-Fusion: an algorithm for discovery of novel fusion transcripts View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2011-08-11

AUTHORS

Daehwan Kim, Steven L Salzberg

ABSTRACT

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/. More... »

PAGES

r72

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/gb-2011-12-8-r72

DOI

http://dx.doi.org/10.1186/gb-2011-12-8-r72

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1006381787

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/21835007


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