Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA.
Genome Biol. 2011 Aug 11;12(8):R72. doi: 10.1186/gb-2011-12-8-r72.
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/.
TopHat-Fusion 是一种用于发现融合基因产物的算法，这些产物是由两条不同染色体的断裂和重新连接，或由染色体内部的重排产生的。TopHat-Fusion 是 TopHat 的增强版本，TopHat 是一种高效的程序，可在不依赖现有注释的情况下对齐 RNA-seq 读取。由于它独立于基因注释，TopHat-Fusion 可以发现来自已知基因、未知基因和已知基因未注释的剪接变体的融合产物。使用来自乳腺癌和前列腺癌细胞系的 RNA-seq 数据，我们检测到了具有可靠证据支持的先前报道的和新的融合。TopHat-Fusion 可在 http://tophat-fusion.sourceforge.net/ 获取。
