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@ARTICLE{Afzal:154647,
      author       = {S. Afzal$^*$ and R. Fronza and M. Schmidt$^*$},
      title        = {{VS}eq-{T}oolkit: {C}omprehensive {C}omputational
                      {A}nalysis of {V}iral {V}ectors in {G}ene {T}herapy.},
      journal      = {Molecular therapy Methods $\&$ clinical development [...]},
      volume       = {17},
      issn         = {2329-0501},
      address      = {New York, NY},
      publisher    = {Nature Publishing Group},
      reportid     = {DKFZ-2020-00910},
      pages        = {752 - 757},
      year         = {2020},
      note         = {2020 Mar 30;17:752-757#EA:G100#LA:G100#translationale
                      Onkologie},
      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.},
      cin          = {G100 / B340},
      ddc          = {610},
      cid          = {I:(DE-He78)G100-20160331 / I:(DE-He78)B340-20160331},
      pnm          = {312 - Functional and structural genomics (POF3-312)},
      pid          = {G:(DE-HGF)POF3-312},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:32346552},
      pmc          = {pmc:PMC7177155},
      doi          = {10.1016/j.omtm.2020.03.024},
      url          = {https://inrepo02.dkfz.de/record/154647},
}