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Michele Griffa Dept. of Physics, Polytechnic of Torino michele.griffa@polito.it

An international “platform” for supporting Integrative Cancer Modeling: the “Center for the Development of a Virtual Tumor” Project. Michele Griffa Dept. of Physics, Polytechnic of Torino michele.griffa@polito.it.

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Michele Griffa Dept. of Physics, Polytechnic of Torino michele.griffa@polito.it

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  1. An international “platform” for supportingIntegrative Cancer Modeling:the “Center for the Developmentof a Virtual Tumor” Project Michele Griffa Dept. of Physics, Polytechnic of Torino michele.griffa@polito.it The Role of Mathematical Modeling and Numerical Simulation in the Systems Biology Era Workshop Bioindustry Park of Canavese, Colleretto Giacosa February 28th, 2006

  2. NCI (Division of Cancer Biology) Integrative Cancer Biology Program • Initial Workshop on “Complexity in Cancer Biology” (2001) • A NCI consortium designed to develop a systems approach to cancer biology • Adopted as one of the NCI’s 2015 Strategic Priority Areas (8/2003) • Three Pillars: Biology-Modeling-Education • Generate experimental systems and datafor the development and testing of models • Develop mathematical andcomputational predictive models that drive the biology • Develop and implement a training and outreach program for a broader and longer impact on this emerging field. • 9 Centers funded in 2004 (Total: US$ 14.9 million) Source: Dr. Dan Gallahan, associate director, Div. of Cancer Biology, NCI

  3. ICBP: network of interactions Cancer Biomedical Informatics Grid https://cabig.nci.nih.gov/ CaBIG, Bioinformatics Platform Data & Coordinating NCI Committee Models Cancer Research Community ICBP’s ICBP’s ICBP’s Outreach ICBPs Education Collaborations Source: Dr. Dan Gallahan, associate director, Div. of Cancer Biology, NCI

  4. CViT Center for the development of a Virtual Tumor www.cvit.org PI: Thomas S. Deisboeck, M.D. Complex Biosystems Modeling Laboratory Harvard-MIT (HST) Athinoula A. Martinos Center Massachusetts General Hospital • 6 EU university teams (Univ. of Nottingham, Univ. of Torino, Polytechnic of Torino, Oxford Univ., Univ. of Dundee, Heriot-Watt Univ.) • 9 USA university and research teams (Massachussets General Hospital, Rutgers Univ., Univ. of Arizona, Univ. of Notre Dame, Harvard Medical School, Rice Univ., Univ. of Michigan, Univ. of Washington, Translational Genomics Research Institute) • 1 Canadian university team (Univ. of Calgary) • 1 R&D firm (IBM Computational Biology and Internet Technologies divisions) • a www-enabled community of investigators with interest in the biomedical, computational and mathematical aspects of Cancer Research • overall goal: to develop a module-based toolkit for modeling and simulating multiscale cancer growth dynamics following a complex systems approach

  5. Rapid dissemination of knowledge within the community • CViT.org facilitates collaborative authoring on the web and community review of e.g. joint manuscripts, progress reports, discussions, reviews. • Building a community knowledge base • published model summary inventory • published data summary inventory • links to cancer communities resources (e.g. NCBI’s PubMed, caBIG) • Software tools and infrastructure • mailing-lists • RSS/RDF-enabled discussion forums • Wiki-enhanced web site • digital notebooks • IBM InsightLinkTM Annotation system used to create data and model summary inventory

  6. CViT IBM InsightLinkTM Annotation System central server for annotations (DB of annotations objects) each group of annotations is document and user-associated annotations copy of a document (PDF, MS Word, MS Excel, MS PowerPoint, HTML, XML) annotated document

  7. Sharing and organization of community assets. • CViT.org CVS-Based Model Repository allows storage management of software models (algorithms & source code modules) and simulation data. • CViT.org allows for archival and integration of linked biomedical data repositories. • CViT’s vision includes GRID computing. interfaces to models and simulators comparing simulation data/experimental data published papers (data, models)

  8. An international “platform” for supportingIntegrative Cancer Modeling:the Center for the Developmentof a Virtual Tumor Michele Griffa Dept. of Physics, Polytechnic of Torino michele.griffa@polito.it The Role of Mathematical Modeling and Numerical Simulation in the Systems Biology Era Workshop Bioindustry Park of Canavese, Colleretto Giacosa February 28th, 2006

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