23314323
This reference describes ViralFusionSeq.
| PMID | PMID 23314323 |
|---|---|
| Title | ViralFusionSeq: Accurately discover viral integration events and reconstruct fusion transcripts at single-base resolution |
| Year | 2013 |
| Journal | Bioinformatics |
| Author | Jing-Woei Li |
| Volume | |
| Start page |
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Full text description
Insertional mutagenesis from virus infection is an important pathogenic risk for the development of cancer. Despite the advent of high-throughput sequencing, discovery of viral integration sites and expressed viral fusion events are still limited. Here, we present ViralFusionSeq (VFS), which combines soft-clipping information, read-pair analysis, and targeted de novo assembly to discover and annotate viral-human fusions. VFS was used in an RNA-Seq experiment, simulated DNA-Seq experiment and re-analysis of published DNA-Seq datasets. Our experiments demonstrated that VFS is both sensitive and highly accurate.
