National Center for Research Resources T r a n s l a t I n g r e s e a r c h f r o m b a s i c d i s c o v e r y t o i m p r o v e d p a t I e n t c a r e NATIONAL INSTITUTES OF HEALTH Enabling National Networking of Scientists and Resource Discovery Elaine Collier, MD May 10, 2010
ARRA Limited Competition RFA: Enabling National Networking of Scientists and Resource Discovery RFA-RR-09-009 Purpose: To develop, enhance, or extend infrastructure to facilitate national discovery of individuals and resources to support biomedical research Includes a diversity of institutions (in size, technology sophistication, geography, racial/ethnic culture) ensuring broad use and impact Distributed (non-centralized) approach Mechanism of Support: Resource-Related Research Projects Cooperative Agreement (U24) Funds Available $30 million over two years NCRR
Research Networking Award VIVOweb Mike Conlon, PI • University of Florida, Gainesville, FL • Cornell University, Ithaca, NY • Indiana University, Bloomington, IN • Washington University, St Louis, MO • Weill-Cornell Medical College, NY, NY • The Scripps Research Institute, La Jolla, CA • Ponce Medical School, Ponce, PR NCRR
VIVO Software for National Networking • Semantic web compliant data network ▫ VIVO software expansion ▫ Compatible with other software • Today v. 1 released publically ▫ Standard ontology ▫ Local search ▫ Application support • Release 2, open adoption ▫ Ontology ▫ Network search ▫ Grouping, interfaces • Release 3, national network ▫ Most requested features www.VIVOweb.org
Future application -- Find Scientists Semantic search finds only items of interest.
Future application -- Understand Collaborations A sample PI/Co-PI network More recent collaborations are lighter in color Larger circles indicate larger awards
Future application -- Simplify Tasks • Information in VIVO can be used to create ▫ Biosketches ▫ Vitas ▫ Annual reports ▫ Department and research group web sites • Information can be used to populate profiles in collaborative tools – portals, wikis, …
Resource Discovery Grant Awarded eagle-I - Lee Nadler, PI • Harvard University • Oregon Health & Science University • Dartmouth College • Jackson State University • Montana State University • Morehouse School of Medicine • University of Alaska Fairbanks • University of Hawaii Manoa • University of Puerto Rico NCRR
eagle-i 1.0 • Create a pilot search network of nine sites • Measure effectiveness – “Making the invisible visible” • Demonstrate utility • Demonstrate scalability • Resource types • Quantity of resources • Number of sites • Ease of new sites joining the network • www.eagle-i.org/home/
Iterative Methodology • Two 12 month execution cycles – Allows for learning from the first cycle to be factored into the second cycle build and data collection processes • Macro “sprints” within each cycle – Set measurable milestones and clear go/no go decision points – First sprint is complete
Macro Sprint 1 Results • Demonstration of integrated system as a platform for testing and ongoing incremental component development – Data collection tools – Repositories – Query network – Search application • Data collection for two data types: cores and reagents • Ontology development has created ongoing collaborations with several outside organizations: – NIF – NCBO – OBI – CIRWP – VIVO • Over 60 lab visits performed • Over 1300 resources catalogued
Macro Sprint 2 (ca. August 2010) Objectives • Data collection of three new resource types • Over 200 lab visits planned • Prototype integration with existing third party LIMS • Prototype integration with existing repository (e.g. clinicaltrials.gov, pubmed.gov) • Internal release of the fully integrated system and production versions of all major components: – Web based data entry and data curation tools – ETL – API – RDF Repository – Federated Network – Web Based Search Application
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