VISMapper: ultra-fast exhaustive cartography of viral insertion sites for gene therapy.

TitleVISMapper: ultra-fast exhaustive cartography of viral insertion sites for gene therapy.
Publication TypeJournal Article
Year of Publication2017
AuthorsJuanes, JM, Gallego, A, Tárraga, J, Chaves, FJ, Marin-Garcia, P, Medina, I, Arnau, V, Dopazo, J
JournalBMC Bioinformatics
Volume18
Issue1
Pagination421
Date Published2017 Sep 20
ISSN1471-2105
Abstract

BACKGROUND: The possibility of integrating viral vectors to become a persistent part of the host genome makes them a crucial element of clinical gene therapy. However, viral integration has associated risks, such as the unintentional activation of oncogenes that can result in cancer. Therefore, the analysis of integration sites of retroviral vectors is a crucial step in developing safer vectors for therapeutic use.

RESULTS: Here we present VISMapper, a vector integration site analysis web server, to analyze next-generation sequencing data for retroviral vector integration sites. VISMapper can be found at: http://vismapper.babelomics.org .

CONCLUSIONS: Because it uses novel mapping algorithms VISMapper is remarkably faster than previous available programs. It also provides a useful graphical interface to analyze the integration sites found in the genomic context.

DOI10.1186/s12859-017-1837-z
Alternate JournalBMC Bioinformatics
PubMed ID28931371
PubMed Central IDPMC5607581