creating a data interchange standard for researchers, research, and research resources: vivo-isf...
TRANSCRIPT
Creating a Data Interchange Standard for Researchers, Research, and Research Resources:
VIVO-ISF
Dean B. KrafftBrian Lowe
Coalition for Networked Information10 December 2013
What is VIVO?• Software: An open-source semantic-web-based
researcher and research discovery tool• Data: Institution-wide, publicly-visible
information about research and researchers• Standards: A standard ontology (VIVO data) that
interconnects researchers, communities, and campuses using Linked Open Data
• Community: An open community with strong national and international participation
VIVO Normalizes Complex Inputs
People
Grants
Data
Google Scholar
Center/ Dept/
Program websites
Research Facilities &
Services
Courses
Tech transfer
Publications
VP ResearchUniv.
Communications
HPC
HR data
Faculty Reporting
GradSchool
Pubmed
CrossRef
Researcher.gov
arXiv
other databases
NIH RePorter
Self-editing
Other campuses
VIVO connects scientists and scholars with and through their research and scholarship
Customization
The VIVO Community is now over 100 institutions worldwide
Why is VIVO important?• It is the only standard way to exchange
information about research and researchers across diverse institutions
• It provides authoritative data from institutional databases of record as Linked Open Data
• Structured VIVO data supports search, analysis and visualization across institutions and consortia
• It is highly flexible and extensible to cover research resources, facilities, datasets, and more
An HTTP request can return HTML or data
Value for institutions and consortia• Common data substrate
– Public, granular and direct– Discovery via external and internal search engines– Available for reuse at many levels
• Distributed curation– E.g., affiliations beyond what HR system tracks– Data coordination across functional silos– Feeding changes back to systems of record– Direct linking across campuses
• Data that is visible gets fixed
Example: U.S. Dept. of Agriculture
• Multiple agencies including Agricultural Research Service and U.S. Forest Service
• VIVO portal for 45,000 intramural researchers• Goal to link to Land Grant universities and
international agricultural research centers• Using VIVO as an integration tool to send data
for federal STAR METRICS/SciENCV projects• RDF exposed via a SPARQL endpoint constitutes
compliance
VIVO Exploration and Analytics• Since VIVO is structured data, it can be
navigated, analyzed, and visualized uniformly within or across institutions
• VIVO can visualize the strengths of networks within and across institutions
• You can create dashboards to help understand academic outputs and collaborations
• VIVO can map research engagements and impact
Providing the Context for Research Data
• Context is critical to finding, understanding, and reusing research data
• Contexts include:– Narrative publications– The researcher, research resources, grants, etc.– Dataset registries– Structured Knowledge Environments– The web of Linked Open Data
VIVO Dataset Registries
• VIVO/ANDS consortium in Australia– Link research data with researcher profiles and
publications– Harvest to national registry
• Datastar data registry tool– Add-on to VIVO or independent companion– Complement to other library data-related services– Institute for Museum and Library Services (IMLS)
grant
Melbourne Central Research Data Registry
What is VIVO Today?
• An open community hosted by the DuraSpace 501(c)3 with strong national and international participation, for which we are currently hiring a full-time VIVO Project Director
• An open suite of software tools• A growing body of interoperable data• An ontology (VIVO-ISF) with a community-
driven process for extension
VIVO and the Integrated Semantic Framework
What is the Integrated Semantic Framework?
• A semantic infrastructure to represent people based on all the products of their research and activities– To support both networking and reporting
• A partnership between VIVO, eagle-i, and ShareCenter
• A Clinical and Translational Information Exchange Project (CTSAConnect)– 18 Months (February 2012 – August 2013)– Funded by NIH NCATS via Booz Allen Hamilton
CTSAconnect TeamOHSU:Melissa Haendel, Carlo Torniai, Nicole Vasilevsky, Shahim Essaid, Eric Orwoll
Cornell University:Jon Corson-Rikert, Dean Krafft, Brian Lowe
University of Florida: Mike Conlon, Chris Barnes, Nicholas Rejack
Stony Brook University: Moises Eisenberg, Erich Bremer, Janos Hajagos
Harvard University:Daniela Bourges-WaldeggSophia Cheng
Share Center:Chris Kelleher, Will Corbett, Ranjit Das, Ben Sharma
University at Buffalo:Barry Smith, Dagobert Soergel
People and Resources
techniquestraining
protocols
affiliation
roles
grants
credentials
genes
anatomy
manufacturer
publications
Connecting researchers, resources, and clinical activities
Beyond Static CVs
• Distributed data
• Research and scholarship in context
• Context aids in disambiguation
• Contributor roles
• Outputs and outcomes beyond publications
Ontologies for Linked Data
• First level text– Second level
• Third level– Fourth level
» Fifth Level
Linked Data Vocabularies
FOAF (people, organizations,
groups)VCard
(contact information)
BIBO (publications)
SKOS (terminologies)
Open Biomedical Ontologies
OBI(Ontology of Biomedical
Investigations) ERO(eagle-i Research
Resource Ontology)RO
(Relationship Ontology)
IAO(Information Artifact
Ontology)
Basic Formal Ontology
Process
Spatial Region
Szabolcs Toth http://www.flickr.com/photos/necccc/5726970855/
Role
Site
Occurrent
Continuant
Relationships
Person Org.Position
Person ArticleAuthor-
ship
Aggregate Data over Time
Person Org.Position
timeinterval
Aggregate Data over Time
Person Org. 1Position
1
timeInterval
1
Org. 2Position
2
timeInterval
2
Aggregate Data over Time
Person NameVCard
timeinterval
Aggregate Data over Time
PersonOld
NameVCard 1
timeInterval
1
New Name
VCard 2
timeInterval
2
Aggregate Data over Time
Person Author-ship
VCard
timeinterval
Beyond Publication Bylines
Person ProjectRole
• What are people doing?• Roles in projects, activities
• Other kinds of scholarly contribution• Datasets, resources
Roles and Outputs
PersonProject
Role
document /resource /
etc.
Application Examples: Search
Application Examples: Search
Ponce VIVO
WashU VIVO
IU VIVO
CornellIthaca VIVO
Weill
Cornell VIVO
eagle-IResearchresources Harvard
ProfilesRDF
OtherVIVOs
DigitalVitaRDF
IowaLokiRDF
Linked Open Data
vivosearch.
org
UF VIVO
Scripps VIVO
Solrsearchindex
Alter-nateSolr
index
Application Examples: Search
Use Cases
• Find publications supported by grants• Discover and re-use expensive equipment and
resources• Demonstrate importance of facilities services
to research results• Discover people with access to resources or
with expertise in techniques
Linking People through Terminologies
ISF+ UMLS
Clinicians
ICD9 codes
Researchers
MeSH keywords
linked data
http://cstaconnect.org/
Humanities and Artistic Works
• Performances of a work• Translations• Collections and exhibits
Steven McCauley and Theodore Lawless, Brown University
http://www.vivoweb.org/files/vivo2013/friday_pm/VIVO-Humanities_McCauley.pdf
Collaborative Development
• DuraSpace VIVO-ISF Working Group• Biweekly calls (Wed 2 pm ET)https://wiki.duraspace.org/display/VIVO/ - look for “Ontology Working Group”
Interest Groups
Linked Data for Libraries: Creating a Scholarly Resource Semantic
Information Store (SRSIS)
Linked Data for Libraries
• On December 5, 2013, the Andrew W. Mellon Foundation made a two-year $999K grant to Cornell, Harvard, and Stanford starting Jan ‘14
• Partners will work together to develop an ontology and linked data sources that provide relationships, metadata, and broad context for Scholarly Information Resources
• Leverages existing work by both the VIVO project and the Hydra Partnership
The Project Team
• Cornell: Dean Krafft, Jon Corson-Rikert, Brian Lowe, Simeon Warner, and 1.5 new FTE
• Harvard: David Weinberger, Paul Deschner, and an outside consultant
• Stanford: Tom Cramer and 1 new FTE
“The goal is to create a Scholarly Resource Semantic Information Store model that works both within
individual institutions and through a coordinated, extensible network of Linked Open Data to capture the
intellectual value that librarians and other domain experts add to information resources when they
describe, annotate, organize, select, and use those resources, together with the social value evident from
patterns of usage.”
Project timeline 2014
• Jan-June 2014: Initial ontology design; identify data sources; identify external vocabularies; begin SRSIS and Hydra ActiveTriples development
• July-Dec 2014: Complete initial ontology; complete initial ActiveTriples development; pilot initial data ingests into Vitro-based SRSIS instance at Cornell
Workshop – December 2014
• Hold a two-day workshop for 25 attendees from 10-12 interested library, archive, and cultural memory institutions
• Demonstrate initial prototypes of SRSIS and ontology• Obtain feedback on initial ontology design• Obtain feedback on overall design and approach• Make connections to support participants in piloting this
approach at their institutions• Understand how institutions see this approach fitting in
with their own multi-institutional collaborations and existing cross-institutional efforts such as the Digital Public Library of America, VIVO, and SHARE
Project timeline Jan-June 2015
• Pilot SRSIS instances at Harvard and Stanford• Populate Cornell SRSIS instance from multiple
data sources including MARC catalog records, EAD finding aids, VIVO data, CuLLR, and local digital collections
• Develop a test instance of the SRSIS Search application harvesting RDF across the three partner institutions
• Integrate SRSIS with ActiveTriples
Project timeline July-Dec 2015
• Implement fully functional SRSIS instances at Cornell, Harvard, and Stanford
• Public release of open source SRSIS code and ontology
• Public release of open source ActiveTriples Hydra Component
• Create public demonstration of SRSIS Search-based discovery and access system across the three SRSIS instances
Project Outcomes
• Open source extensible SRSIS ontology compatible with VIVO ontology, BIBFRAME, and other existing library LOD efforts
• Open source SRSIS semantic editing, display, and discovery system
• Project Hydra compatible interface to SRSIS, using ActiveTriples to support Blacklight search across multiple SRSIS instances
