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tranSMART Community Meeting 5-7 Nov 13 - Session 2: Developing a TR Community around the tranSMART Platform
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tranSMART Community Meeting 5-7 Nov 13 - Session 2: Developing a TR Community around the tranSMART Platform


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tranSMART Community Meeting 5-7 Nov 13 - Session 2: Developing a Translational Research Community around the tranSMART Platform …

tranSMART Community Meeting 5-7 Nov 13 - Session 2: Developing a Translational Research Community around the tranSMART Platform
Keith Elliston, tranSMART Foundation

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  • The tranSMART platform was initially developed for internal use at JNJ. In 2012, the platform was contributed to the public domain as an open-source project. In 2013, the tranSMART Foundation was established to coalesce the tranSMART open-source/open-data community and steward community resources. The tranSMART Foundation has since established a series of community development resources (forums, code repository, community workshops, and more), organized the community to release the first new version of the platform (version 1.1, delivered on schedule, September 15, 2013) and is bringing multiple commercial partners to the community that are contributing data and services to the community at no cost. These efforts represent the beginning of a true translational research ecosystem. Recently, the tranSMART Foundation launched a membership program that enables the community to participate in the development, governance and sustainability of this non-profit organization, for the benefit of the entire translational research community. Details of the Foundation's strategy and membership program will be presented.
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    • 1. Code Content Community Code Content Community Building a Robust Translational Research Community around the Open-Source tranSMART Platform The Paris Workshop 4-November-2013
    • 2. Code Content Community Translational Research Translational Research Is the process of applying ideas, insights, and discoveries generated through basic scientific inquiry to the treatment and prevention of human disease – the critical bridge between basic and clinical research. Catalyzing Translational Innovation CHRISTOPHER P. AUSTIN, M.D. DIRECTOR, NCATS The steps in translational research are designed to ensure that the discoveries that advance into human trials have the highest possible chance of success in terms of both safety
    • 3. Code Content Community The Translational Challenge Target Validation Basic Science NIH $29 Billion/Yr ** Discovery Lead Optimization Non Clinical Safety First in Human Translational Science Clinical Development Biotech and Pharma $64 Billion/Yr ** Phase II Phase III FDA Approval The Translational Gap ** Sources: Michael J. Fox Foundation for Parkinson’s Research; Faster Cures 2013 Market Launch
    • 4. Code Content Framing the Challenge Research Data is Increasing GEO Sample Counts Over Time Community
    • 5. Code Content Community Translational Science is Becoming an Information Science Data Integration & Analysis Populations Athey and Omenn, 2009
    • 6. Code Content Community Addressing the Innovation Challenge
    • 7. Code Content Community tranSMART: More than just a Platform an approach to enable translational science tranSMART – A platform and a Community • Open-source and opendata translational biomedical research community • Scientists, Developers, Service Providers, Clinicians A Community…
    • 8. Code Content Community tranSMART Foundation Ethos: From the Linux Foundation Playbook Open communication • With an open community and publicly visible and accessible communication channels, anyone can join the community and meet hundreds of other community members just like them. Licensing of work • Every contribution to the community is licensed in such a way that it benefits the entire community. The fair licensing of all contributions adds a strong sense of confidence to the security of the community. Open tools • Anyone with an Internet connection and a computer can contribute. All of the development tools and documentation are entirely free and open to access. This provides a low barrier to entry, and lets new users play with the technology.
    • 9. Code Content Community tranSMART Creates Value: Collaboration Between Groups and Functions Clinical Group • Trial design • Patient stratification • Response prediction Discovery Group • Target validation • Biomarker discovery Preclinical Group • Animal models • Drug sensitivity • Toxicity
    • 10. Code Ops Team (Officers) THE TRANSMART FOUNDATION Content Community A Not for Profit Corporation Executive Director Kevin Smith, MSIS University of Michigan Co-Chief Executive Officer Michael Braxenthaler, PhD Roche, Pistoia Alliance Co-Chief Executive Officer Brian Athey, PhD University of Michigan Treasurer Ashley George, PhD, GlaxoSmithKline, Pistoia Chief Technology Officer Yike Guo, PhD Imperial College London Chief Science Officer Keith Elliston, PhD Seneca Creek Research
    • 11. Code Content Community The tranSMART Foundation Vision Realizing the promise of translational biomedical research by provision and continuous improvement of a open source code base for data sharing and analytics. Mission The tranSMART Foundation enables effective sharing, integration, standardization, and analysis of heterogeneous data from collaborative translational research by mobilizing the tranSMART open-source and open-data community.
    • 12. Code Content Community THE ROLE OF THE TRANSMART FOUNDATION What if... Scientists working at every university, non-profit research organization, pharmaceutical and biotechnology company in the world could share their precompetitive clinical and molecular biology data – working together to turn scientific discoveries into medical breakthroughs? Community Foster a global community of Users, Developers, and Commercial Service Providers Code Serve as a gateway to high value tranSMART content V1.1 (Sep-13) V1.2 (Q2-14) V2.0 (TBD) Content Serve as a gateway to high value tranSMART content Catalogs coming in late 2013 Continuity >$50M in public/private investment in tranSMART-related projects so far
    • 13. Code Content Community The tranSMART Foundation Goals 1. Establish and sustain tranSMART as the preferred data sharing and analytics platform for translational biomedical research. 2. Link academic, non-profit and corporate research communities for collaborative research facilitated by tranSMART. 3. Align and grow a vibrant developer network around the scientific goals of the tranSMART community. 4. Reduce barriers to entry through use of advanced technologies and an active marketplace.
    • 14. Code Content Community Foundation Key Initiatives • Community – Community Coordination  Developer and User infrastructure  Workshops, Hackathons, Scientific Meetings – tF Certified Program • Ensure the quality of content and services – Business / Marketplace Development • Bring new products and services to the tranSMART Community • Code – Version 1.x Roadmap  Version 1.1 released 9/15/13 • Version 1.2 planned – Version 2.x Roadmap • Initial architecture design planned 6/30/14 • Initial release planned 6/30/15 • Content – Public release of high quality curated datasets • Continuity – Membership program  Ensure the sustainability of the platform and community
    • 15. Code Content Community The tranSMART Platform is Being Adopted: over 35 organizations have implemented tranSMART • • • • • • International Research Initiatives – IMI – eTRIKS, EMIF – CTMM – TraIT Pharma & Biotech – Sanofi, Millennium, Pfizer, JNJ, Roche Government aligned Institutions – FDA Non-Profits – 1Mind4Research, Orion Bionetworks Hospitals / Academics – U Michigan, John’s Hopkins, St. Jude Service Providers – Thomson Reuters, Recombinant(Deloitte), theHyve, Rancho Biosciences, BTGS Start 2008 2008 2010 2010 2010 2011 2011 2012 2012 2012 2012 2012 2012 2012 2012 2012 2012 2012 2012 2013 2013 2013 2013 2013 2013 Organization Johnson & Johnson Recombinant by Deloitte Sage Bionetworks Thomson Reuters U-BIOPRED SAFE-T University of Michigan, Comprehensive Cancer Center (UMCCC) BT Cure CTMM/TraIT FDA IMI/eTRIKS Merck Millennium Pharmaceuticals One Mind for Research (1M4R) Pfizer Roche Sanofi-Aventis St. Jude University of Michigan, Department of Computational Medicine & Bioinformatics (DCM&B) Agios APHP-HEGP Paris France Boehringer Ingelheim Bristol Myers Squibb BT Global Services Accelerated Cure Project for MS Type Pharma Services Non profit Services Consortium Consortium Academic Stage Production Multiple Production Support Production Pilot Production Consortium Consortium Government Consortium Pharma Pharma Non profit Pharma Pharma Pharma Non profit medical center Academic Pilot Development Development Development Pilot Production Production Production Evaluation Development Development Development, Pilot Biotechnology Academic Pharma Pharma Services Non profit Evaluation Production Pilot Evaluation Pilot Development
    • 16. Code Content Community All new development will be based upon the new tranSMART V1.1 core The tranSMART Foundation Coordinates Development to Ensure a Clear Direction TM 1.1
    • 17. Code Content Community Teams develop within the context of their projects The tranSMART Foundation Coordinates Development to Ensure a Clear Direction eTRIKS TM 1.1 TraIT
    • 18. Code Content Community Foundation Led Team Gathers and Helps Decide What to Include in tranSMART v1.2 The tranSMART Foundation Coordinates Development to Ensure a Clear Direction eTRIKS TM 1.1 TraIT
    • 19. Code Content Community Code Integration Phase Driven by Requirements The tranSMART Foundation Coordinates Development to Ensure a Clear Direction eTRIKS TraIT
    • 20. Code Content Community The Foundation will convene a Release Team to Manage the Process The tranSMART Foundation Coordinates Development to Ensure a Clear Direction eTRIKS TM 1.2 TraIT
    • 21. Code Content Community The tranSMART Codebase
    • 22. Code Content Community The tranSMART Project
    • 23. Code Content The tranSMART Project Impact of the Foundation Initial OSS Release Version 1.1 Release Ann Arbor Workshop Amsterdam Workshop Community
    • 24. Code Content Community Top Committers to the Codebase
    • 25. Code Content Community
    • 26. Code Content Community The Foundation’s Plan and Timeline  Phase 1 4/15/13 - 12/31/13  Deliver tranSMART v1.1  Establish Operations team  Initiate membership program • Phase 2 – – – – – – 1/1/14 – 12/31/14 Formalize and Stabilise all Operations Deliver tranSMART v1.2 Initiate development of v2.0 Initiate Content Repository Convene new member-driven BOD • Phase 3 – 1/1/15 – beyond – Growth to sustainability, governed by members – Implementation of v2.x platform • 3 year plan – growth to sustainability for the Foundation, Community and Platform – Organize and enhance the tranSMART Community • Focus on geographical centers of excellence – North America, Europe and Asia • Ensure the quality and usability of the content and services – tF Certified Program • Define the Intellectual Property Landscape – Open source licenses for Code and Content
    • 27. Code Content Community Code Content Community GOVERNANCE STRUCTURE Board of Directors (15 Members) Governance/Oversight Ops Team (Officers) Management Community Committee Code Committee Content Committee establish and oversee Community workgroup/s • User community • Developer community • Marketplace • Documentation & Training Code workgroup/s • Architecture group • Release life cycle mgm’t Content workgroup/s • Scientific AB • Public content • Functionality requirements
    • 28. Code Content Community Foundation Value-Adds • Community – Community Activities • Workshops, hack-a-thons, conferences – Business Development • New service providers, technology partners, etc. • Code – Organization of new releases – Communicating user requirements – Deploying and managing developer infrastructure – Developing quality standards • Content – Encouraging content contributions to the community – Community directed content curation • Continuity – Ensuring that investments in tranSMART projects benefit the whole community – Securing new investments in the platform and community Providing a Nucleus to Build and Grow the tranSMART Community
    • 29. Code Content Community What the Foundation needs from you… • Become a member – Support the Foundation – Participate in Governance and Direction • Advocate for the platform – Building the community is critical for long term success and sustainability • Participate in the Community – – – – Software Development Software Testing Documentation Development Scientific Input