April 5, p.m. VIVO Researcher Networking Update Leslie McIntosh Vivo National Evaluator Washington University Jonathan Corson-Rikert Vivo Development Lead Cornell University Ellen J. Cramer Special Projects Lead Cornell University

VIVO Collaboration Cornell University Dean Krafft (Cornell PI) Manolo Bevia Jim Blake Nick Cappadona Brian Caruso Elly Cramer Medha Devare Elizabeth Hines Huda Khan Brian Lowe Joseph McEnerney Holly Mistlebauer Stella Mitchell Anup Sawant Christopher Westling Tim Worrall Rebecca Younes Jon Corson-Rikert University of Florida Mike Conlon (VIVO and UF PI) Beth Auten Chris Barnes Cecilia Botero Kerry Britt Erin Brooks Amy Buhler Ellie Bushhousen Linda Butson Chris Case Christine Cogar Valrie Davis Mary Edwards Nita Ferree Rolando Garcia-Milan George Hack Chris Haines Sara Henning Rae Jesano Margeaux Johnson Meghan Latorre Yang Li Paula Markes Hannah Norton Narayan Raum Alexander Rockwell Sara Russell Gonzalez Nancy Schaefer Dale Scheppler Nicholas Skaggs Syraj Syed Matthew Tedder Michele R. Tennant Alicia Turner Stephen Williams Indiana University Katy Borner (IU PI) Kavitha Chandrasekar Bin Chen Shanshan Chen Ryan Cobine Jeni Coffey Suresh Deivasigamani Ying Ding Russell Duhon Jon Dunn Poornima Gopinath Julie Hardesty Brian Keese Namrata Lele Micah Linnemeier Nianli Ma Robert H. McDonald Asik Pradhan Gongaju Mark Price Michael Stamper Yuyin Sun Chintan Tank Alan Walsh Brian Wheeler Feng Wu Angela Zoss Ponce School of Medicine Richard J. Noel, Jr. (Ponce PI) Ricardo Espada Colon Damaris Torres Cruz Michael Vega Negrón This project is funded by the National Institutes of Health, U24 RR "VIVO: Enabling National Networking of Scientists” The Scripps Research Institute Gerald Joyce (Scripps PI) Catherine Dunn Brant Kelley Paula King Angela Murrell Barbara Noble Cary Thomas Michaeleen Trimarchi Washington University School of Medicine in St. Louis Rakesh Nagarajan (WUSTL PI) Kristi L. Holmes Caerie Houchins George Joseph Sunita B. Koul Jasmine Owens Leslie D. McIntosh Weill Cornell Medical College Curtis Cole (Weill PI) Paul Albert Victor Brodsky Mark Bronnimann Adam Cheriff Oscar Cruz Dan Dickinson Richard Hu Chris Huang Itay Klaz Kenneth Lee Peter Michelini Grace Migliorisi John Ruffing Jason Specland Tru Tran Vinay Varughese Virgil Wong

Presentation Plan Rough outline: Lessons learned from all sites (LESLIE) min Local implementation specifics (data sources, repurposing) (ELLY) min Development directions and multi-institutional perspectives (JON) min Time for questions at the end. What was submitted: The National Institutes of Health (NIH)-funded project, "VIVO: Enabling National Networking of Scientists," has just completed a fifth release of the VIVO software at the 18-month point of its current two-year grant. This presentation will focus on where VIVO is today, with a review of the implementation progress at all seven project sites, a detailed look into VIVO's integration into the institutional landscape at Cornell University, and a discussion of the national and international dimensions of VIVO and its future development directions. VIVO highlights many of the opportunities and challenges of linked open data, including blending local and national data in a multi-institutional context, identifying authoritative information sources, disambiguating authors and organizations, providing appropriate temporal limits on relationships, and reconciling data differences in updates. Each institution on the VIVO project has faced unique challenges and achieved different successes, but common themes have emerged that will help potential adopters and highlight areas of remaining work. VIVO's role in serving the academic and research mission of a university, as illustrated at Cornell, also presents a compelling value proposition for administrators charged with sustaining the effort at the institutional level. This dynamic will have lasting implications for NIH's vision of a distributed, institutionally-sustained researcher networking solution serving large research consortia and national-level needs.

An open-source semantic web application that enables the discovery of research and scholarship across disciplines in an institution. Populated with detailed profiles of faculty and researchers; displaying items such as publications, teaching, service, and professional affiliations. A powerful search functionality for locating people and information within or across institutions.

Participating Institutions National Network Team University of Florida, Gainesville, FL Cornell University, Ithaca, NY Indiana University, Bloomington, IN The Scripps Research Institute, La Jolla, CA Institution Acad. Staff Student Pop. City Pop. Public/ Private Med School Cornell (Ithaca)1, K100KBoth University of Florida4, K258KPublicYes Indiana University (Bloomington)2, K175KPublic Ponce School of Medicine KPrivateYes The Scripps Research Institute225~22543KPrivate Washington University School of Medicine 1,772~5002.8MPrivateYes Weill-Cornell Medical College1, MPrivateYes

Lessons Learned in VIVO Implementation

Data, Data, Data

Get the Data Who owns the data? Where are the data sources? What permissions do you need to use the data? Manage the Data Who owns the data now? Do you need to create a data management system? How will you refresh your data? How often? Your data are only as good as the source.

Manage Expectations

Contribute to the Community More to open-source than contributing code – Data – Documentation – IRC communication – Listservs – Lessons learned vivoweb.org vivo.sourceforge.net

VIVO Cornell: In-house to National Cloud Development of research profiles using ontologies in a database-driven website to meet the needs of the Life Sciences initiative Converted to Semantic Web standards. Expanded to include disciplines across the institution 2007–2011+ With NIH grant, moved to national and international network of institutions and organizations and their faculty and researcher profiles

VIVO Cornell: Data Sources

Repurposing and re-using data

Local Outreach Provost Office - institutional support Data providers – HR, Annual faculty reporting, Grants, Courses, Other Librarian VIVO liaisons -subject areas Web developers - repurposing of data Department editors - training

Networking Other sites piloting or adopting VIVO technology Arizona State University, Duke University, IICA, Los Alamos National Laboratory, Northwestern University, Stony Brook University, University of Arkansas, University of Buffalo, University of Colorado – Boulder, University of Delaware, University of Oregon, University of Virginia, USDA Integration partners APA (Digital Trust), Duke (Widgets), Harvard University (Harvard Profiles), Indiana University (HUBzero), Orchid, Stony Brook University (UMLS), University of Hong Kong (Knowledge Exchange), University of Pittsburgh (Digital Vita), Weill Cornell Medical College (Google Refine). International efforts ANDS-Vitro Consortium (Griffith, QUT, University of Melbourne, VeRSI) Chinese Academy of Sciences IICA (Inter-American Institute for Cooperation on Agriculture) is considering options like VIVO for a researcher network for their SIDALC Application and there is a pilot VIVO implementation at the El Colegio de Postgraduados of Mexico.

VIVO update part III VIVO core design principles Enhancements during the NIH grant Planned development VIVO at web scale Mini-grants and collaborations Building community and sustainability

First, it’s about data Consistent formatting, in a language of the Web Self-describing – Ontology – Context inherent in the data Distributed De-referenceable Reusable without (or with) modification Persistent independently of any application

VIVO is not just people or profiles Anything can be a type (and have individuals) All individuals have the same structure – Varying attributes & relationships – Inheritance Extend the ontology without modifying the app – Tradeoffs of generality vs. optimal interface

Highlights of recent improvements Linked Open Data Linked Open Data Application navigation theming scalability MVC structure VIVO Core Ontology VIVO Core Ontology eagle-i research resources eagle-i research resources self-editing external authentication external authentication Harvester Visualizations page templates grants HR data Pubmed Drupal importer

Deliverables by August, 2011 Linked Open Data Linked Open Data Application navigation theming scalability MVC structure VIVO Core Ontology VIVO Core Ontology self-editing external authentication external authentication Visualizations page templates Map of Science GeoMap role-based authorization role-based authorization aggregator software aggregator software RDF to Solr indexer RDF to Solr indexer local/ national search UI local/ national search UI linking between VIVOs linking between VIVOs Search-related functionalities Bioportal submission Bioportal submission Harvester more pub formats more pub formats national grant data national grant data Drupal importer

“National” search NIH mandated no reliance on sustained centralized infrastructure Aggregation of RDF from multiple sources – Harvard Profiles, Collexis, and likely others Solr indexing leveraging the VIVO ontology Aggregator and indexing will be configurable to harvest any desired set of sources

National networking & search Ponce VIVO WashU VIVO IU VIVO Cornell Ithaca VIVO Cornell Ithaca VIVO Weill Cornell VIVO Weill Cornell VIVO VIVO aggregator triple store VIVO aggregator triple store Other VIVOs Other VIVOs Other CTSA VIVOs Other CTSA VIVOs Harvard Profiles RDF Harvard Profiles RDF Other VIVOs Other VIVOs Other RDF Other RDF Future CTSA triple store Future CTSA triple store Future state or regional triple store Future state or regional triple store Future CTSA Solr index Future CTSA Solr index Other RDF Other RDF Solr search index Solr search index Linked Open Data future Solr index future Solr index VIVO national network search VIVO national network search UF VIVO Scripps VIVO

VIVO at web scale Connections directly between VIVOs – Multiple campuses of 1 institution – Multiple institutions within a consortium – Data resides & served from home institution Individuals linked by URI or common identifier Updates via linked data harvesting or pingback

As the linked data cloud grows Search enhanced by authoritative, structured, and updated data – Retrieval and filtering by type & relationship, not just text – Enables better data mining and analysis – Reduces reporting burden Unique semantic advantages – Categorization implicit in defined ontologies – Common references to shared terminologies – ORCID and other initiatives leading to common references to individuals

Community development VIVOweb.org VIVO on sourceforge – Fully open source (BSD license) – Subversion repository – download or check out – Active development and implementation mail lists & forums – Installation and upgrade documentation – Wiki-based documentation effort – Supplemental materials Many ways to contribute and benefit

Mini-grants address key areas Controlled vocabularies (Stony Brook) Author IDs and disambiguation (ORCID) Widgets to re-use VIVO data in standard web pages (Duke) Direct output to biosketches and CVs (Pittsburgh) Connection to the HUBzero scientific simulation and grid services platform, via Joomla CMS (IU) Google Refine for data cleanup and export (Weill Cornell)

VIVO Ecosystem Evolution

Community collaborations ORCID Connections to institutional repositories, as other libraries implement VIVO Library of Congress support for Exhibit API with VIVO as one target Dataset metadata discovery and registry work, with Australian VIVO consortium

Questions yet to address What access points and services need to be provided for national (or international) research networking to succeed? – How will people be able to integrate this data into their daily workflow and research process? – How will boundaries between public and private data and services work? Federating group privileges as well as identities across multiple VIVOs and to other research- enabling tools

Thank you