AMIA (American Medical Informatics Association)
2013 Joint Summits on Translational Science
San Francisco California
Parc 55 Hotel San Francisco
Tuesday, March 19
TBI-04: Panel - tranSMART: An Open Source and Community-Driven Informatics and Data Sharing Platform for Clinical and Translational Research
8:30 AM - 10:00 AM; Cyril Magnin I (Parc 55 Wyndham San Francisco)
B. Athey, University of Michigan; M. Braxenthaler, Pistoia Alliance; M. Haas, One Mind for Research; Y. Guo, Imperial College London
tranSMART is an emerging global open source public private partnership community developing a comprehensive informatics-based analysis and data-sharing cloud platform for clinical and translational research. The tranSMART consortium includes pharmaceutical and other companies, not-for-profits, academic entities, patient advocacy groups, and government stakeholders. The tranSMART value proposition relies on the concept that the global community of users, developers, and stakeholders are the best source of innovation for applications and for useful data. Continued development and use of the tranSMART platform will create a means to enable “pre-competitive” data sharing broadly, saving money and, potentially accelerating research translation to cures. Significant transformative effects of tranSMART includes 1) allowing for all its user community to benefit from experts globally, 2) capturing the best of innovation in analytic tools, 3) a growing ‘big data’ resource, 4) convergent standards, and 5) new informatics-enabled translational science in the pharma, academic, and not-for-profit sectors.
TBI Poster Session
5:00 PM - 6:00 PM; Cyril Magnin Foyer (Parc 55 Wyndham San Francisco)
AMIA-069-T2013. tranSMART PostgreSQL Collaborative Effort
Terry Weymouth; Glenn Tarcea; Manish Kapoor; John Boles; Mark Conser; Jonathan Cornibe; Michael McDuffie; Jean Avitabile; Jinlei Liu; Kevin Smith; Brian Athey
We report on a collaborative effort to port tranSMART from Oracle to postgreSQL. The tranSMART platform accelerates discoveries within complex biological systems by supporting an integrated database of research results linked to reusable and scalable analytics; postgreSQL is a premiere open source database system. The porting effort further expanded tranSMART’s reach into the open source world. The effort demonstrated the feasibility of open source development and collaboration that brings together private and public interests.
AMIA-109-T2013. Integrating NCIBI Tools into tranSMART
Terry Weymouth; Zach Wright; Vasudeva Mahavisno; Glenn Tarcea; Alex Ade; Maureen Sartor; Alla Karnovsky; Kevin Smith; Brian Athey
The tranSMART open source data-sharing and analytics platform provides search, browse, and exploration capabilities of heterogeneous data in support of clinical and translational research. We ported a set of richly interactive tools from the National Center for Integrative Biomedical Informatics (NCIBI) project into the search portion of tranSMART. These tools support the linking of user data with NCIBI integrated pathway, genetics, metabolomics, MeSH, and PubMed data. Both a learning experience and a typical development effort, this project contributed enhanced analytical capabilities to tranSMART.
tranSMART Community Meeting
6:30 p.m. – 8:00 p.m. Mission (Parc 55 Wyndham San Francisco)
Want to know more about tranSMART? Come learn about the Open Source and Community-Driven Informatics and Data Sharing Platform for Clinical and Translational Research. Updates on major projects and the tranSMART roadmap will be presented. Connect with newbie and veteran members of the tranSMART community.