A graph based framework to model virus integration sites

• Verfasst von: Fronza, Raffaele [VerfasserIn]
• Verfasst von: Vasciaveo, Alessandro [VerfasserIn]
• Verfasst von: Benso, Alfredo [VerfasserIn]
• Verfasst von: Schmidt, Manfred [VerfasserIn]
• Titel: A graph based framework to model virus integration sites
• Verf.angabe: Raffaele Fronza, Alessandro Vasciaveo, Alfredo Benso, Manfred Schmidt
• Jahr: 2016
• Jahr des Originals: 2015
• Umfang: 9 S.
• Fussnoten: Available online 30 November 2015 ; Gesehen am 28.05.2020
• Titel Quelle: Enthalten in: Computational and structural biotechnology journal
• Ort Quelle: Gotenburg : Research Network of Computational and Structural Biotechnology (RNCSB), 2012
• Jahr Quelle: 2016
• Band/Heft Quelle: 14(2016), Seite 69-77
• ISSN Quelle: 2001-0370
• DOI: doi:10.1016/j.csbj.2015.10.006
• Datenträger: Online-Ressource
• Sprache: eng
• Sach-SW: Gene therapy
• Sach-SW: Genomics
• Sach-SW: Insertional mutagenesis
• Sach-SW: Systems biology
• K10plus-PPN: 169894456X

Abstract

With next generation sequencing thousands of virus and viral vector integration genome targets are now under investigation to uncover specific integration preferences and to define clusters of integration, termed common integration sites (CIS), that may allow to assess gene therapy safety or to detect disease related genomic features such as oncogenes. Here, we addressed the challenge to: 1) define the notion of CIS on graph models, 2) demonstrate that the structure of CIS enters in the category of scale-free networks and 3) show that our network approach analyzes CIS dynamically in an integrated systems biology framework using the Retroviral Transposon Tagged Cancer Gene Database (RTCGD) as a testing dataset.