Enabling National Networking of Scientists and Resource Discovery - - PowerPoint PPT Presentation

National Center for Research Resources

NATIONAL INSTITUTES OF HEALTH

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

Enabling National Networking of Scientists and Resource Discovery

Elaine Collier, MD May 10, 2010

NCRR

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

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, …

NCRR

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

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
• ngoing 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