Journal
BIOINFORMATICS
Volume 27, Issue 5, Pages 720-722Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btq722
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Funding
- National Institutes of Health [P40 RR024928, R01LM009722, T32 HL007910, P01 HL53586]
- Indiana Clinical and Translational Sciences Institute Bioinformatics and Advanced Information Technology Cores [U54 RR025761]
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Retroviral integration has been implicated in several biomedical applications, including identification of cancer-associated genes and malignant transformation in gene therapy clinical trials. We introduce an efficient and scalable method for fast identification of viral vector integration sites from long read high-throughput sequencing. Individual sequence reads are masked to remove non-genomic sequence, aligned to the host genome and assembled into contiguous fragments used to pinpoint the position of integration.
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