Article
A novel bioinformatics pipeline for identification and characterization of fusion transcripts in breast cancer and normal cell lines.
Nucleic acids research - 1 Aug 2011
Asmann Yan W, Hossain Asif, Necela Brian M, Middha Sumit, Kalari Krishna R, Sun Zhifu, Chai High-Seng, Williamson David W, Radisky Derek, Schroth Gary P, Kocher Jean-Pierre A, Perez Edith A, Thompson E Aubrey
Abstract excerpt
SnowShoes-FTD, developed for fusion transcript detection in paired-end mRNA-Seq data, employs multiple steps of false positive filtering to nominate fusion transcripts with near 100% confidence. Unique features include: (i) identification of multiple fusion isoforms from two gene partners; (ii) prediction of genomic rearrangements; (iii) identification of exon fusion boundaries; (iv) generation of a 5'-3' fusion...
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