Bioinformatic clonality analysis of next-generation sequencing-derived viral vector integration sites.

ABSTRACT: Clonality analysis of viral vector-transduced cell populations represents a convincing approach to dissect the physiology of tissue and organ regeneration, to monitor the fate of individual gene-corrected cells in vivo, and to assess vector biosafety. With the decoding of mammalian genomes and the introduction of next-generation sequencing technologies, the demand for automated bioinformatic analysis tools that can rapidly process and annotate vector integration sites is rising. Here, we provide a publicly accessible, graphical user interface-guided automated bioinformatic high-throughput integration site analysis pipeline. Its performance and key features are illustrated on pyrosequenced linear amplification-mediated PCR products derived from one patient previously enrolled in the first l

SUBMITTER: Arens A 

PROVIDER: S-EPMC4015219 | biostudies-literature | 2012 Apr

REPOSITORIES: biostudies-literature