Journal Article

DKFZ-2020-00910

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png VSeq-Toolkit: Comprehensive Computational Analysis of Viral Vectors in Gene Therapy.

Afzal, S. (First author)DKFZ* ; Fronza, R. ; Schmidt, M. (Last author)DKFZ*

2020
Nature Publishing Group New York, NY

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Please use a persistent id in citations: doi:10.1016/j.omtm.2020.03.024

Abstract: Viral vector characterization and analysis are important components for the development of safe gene therapeutic products, elucidating the potential genotoxic and immunogenic effects of vectors and establishing their safety profiles. Here, we present VSeq-Toolkit, which offers varying analysis modes for viral gene therapy data. The first mode determines the undesirable known contaminants and their frequency in viral preparations or other sequencing data. The second mode is designed for the analysis of intra-vector fusion breakpoints and the third mode for unraveling the viral-host fusion events distribution. Analysis modes of our toolkit can be executed independently or together and allow the analysis of multiple viral vectors concurrently. It has been designed and evaluated for the analysis of short read high-throughput sequencing data, including whole-genome or targeted sequencing. VSeq-Toolkit is developed in Perl and Bash programming languages and is available at https://github.com/CompMeth/VSeq-Toolkit.

Note: 2020 Mar 30;17:752-757#EA:G100#LA:G100#translationale Onkologie

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Contributing Institute(s):

1. Translationale Onkologie (G100)
2. Translationale Medizinische Onkologie (B340)

Research Program(s):

1. 312 - Functional and structural genomics (POF3-312) (POF3-312)

Appears in the scientific report 2020

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Database coverage:
; ; ; BIOSIS Previews ; Clarivate Analytics Master Journal List ; DOAJ Seal ; IF < 5 ; JCR ; NCBI Molecular Biology Database ; PubMed Central ; SCOPUS ; Science Citation Index Expanded ; Web of Science Core Collection

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