Vy-PER: eliminating false positive detection of virus integration events in next generation sequencing data.

ABSTRACT: Several pathogenic viruses such as hepatitis B and human immunodeficiency viruses may integrate into the host genome. These virus/host integrations are detectable using paired-end next generation sequencing. However, the low number of expected true virus integrations may be difficult to distinguish from the noise of many false positive candidates. Here, we propose a novel filtering approach that increases specificity without compromising sensitivity for virus/host chimera detection. Our detection pipeline termed Vy-PER (Virus integration detection bY Paired End Reads) outperforms existing similar tools in speed and accuracy. We analysed whole genome data from childhood acute lymphoblastic leukemia (ALL), which is characterised by genomic rearrangements and usually associated with radiation

SUBMITTER: Forster M 

PROVIDER: S-EPMC4499804 | biostudies-literature | 2015 Jul

REPOSITORIES: biostudies-literature