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000124312 1001_ $$0P:(DE-He78)919864a40f3154bace897117e0e2387e$$aAfzal, Saira$$b0$$eFirst author$$udkfz
000124312 245__ $$aGENE-IS: Time-Efficient and Accurate Analysis of Viral Integration Events in Large-Scale Gene Therapy Data.
000124312 260__ $$aNew York, NY$$bNature Publ. Group$$c2017
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000124312 520__ $$aIntegration site profiling and clonality analysis of viral vector distribution in gene therapy is a key factor to monitor the fate of gene-corrected cells, assess the risk of malignant transformation, and establish vector biosafety. We developed the Genome Integration Site Analysis Pipeline (GENE-IS) for highly time-efficient and accurate detection of next-generation sequencing (NGS)-based viral vector integration sites (ISs) in gene therapy data. It is the first available tool with dual analysis mode that allows IS analysis both in data generated by PCR-based methods, such as linear amplification method PCR (LAM-PCR), and by rapidly evolving targeted sequencing (e.g., Agilent SureSelect) technologies. GENE-IS makes use of trimming strategies, customized reference genome, and soft-clipped information with sequential filtering steps to provide annotated IS with clonality information. It is a scalable, robust, precise, and reliable tool for large-scale pre-clinical and clinical data analysis that provides users complete flexibility and control over analysis with a broad range of configurable parameters. GENE-IS is available at https://github.com/G100DKFZ/gene-is.
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000124312 7001_ $$0P:(DE-He78)928f784868a4b5ff301367ecda92f152$$aWilkening, Stefan$$b1
000124312 7001_ $$0P:(DE-He78)5bacb661d5d7c0220d8f996d980ad8de$$avon Kalle, Christof$$b2
000124312 7001_ $$0P:(DE-He78)b91bec47a4148ba68a58ab292d5860f2$$aSchmidt, Manfred$$b3
000124312 7001_ $$0P:(DE-He78)c2585457f370249465a2080111937cf5$$aFronza, Raffaele$$b4$$eLast author
000124312 773__ $$0PERI:(DE-600)2662631-7$$a10.1016/j.omtn.2016.12.001$$gVol. 6, p. 133 - 139$$p133 - 139$$tMolecular Therapy / Nucleic Acids$$v6$$x2162-2531$$y2017
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