VISPA2: a scalable pipeline for high-throughput identification and annotation of vector integration sites.

ABSTRACT: BACKGROUND:Bioinformatics tools designed to identify lentiviral or retroviral vector insertion sites in the genome of host cells are used to address the safety and long-term efficacy of hematopoietic stem cell gene therapy applications and to study the clonal dynamics of hematopoietic reconstitution. The increasing number of gene therapy clinical trials combined with the increasing amount of Next Generation Sequencing data, aimed at identifying integration sites, require both highly accurate and efficient computational software able to correctly process "big data" in a reasonable computational time. RESULTS:Here we present VISPA2 (Vector Integration Site Parallel Analysis, version 2), the latest optimized computational pipeline for integration site identification and analysis with the foll

SUBMITTER: Spinozzi G 

PROVIDER: S-EPMC5702242 | biostudies-literature | 2017 Nov

REPOSITORIES: biostudies-literature