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The VIVO Ontology Project Technology: Jon Corson-Rikert, Brian Caruso, Brian Lowe, Nick Cappadona

The VIVO Ontology Project Technology: Jon Corson-Rikert, Brian Caruso, Brian Lowe, Nick Cappadona Project Coordination: Medha Devare, Elaine Guidero, Jaron Turner

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The VIVO Ontology Project Technology: Jon Corson-Rikert, Brian Caruso, Brian Lowe, Nick Cappadona

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  1. The VIVO Ontology Project Technology: Jon Corson-Rikert, Brian Caruso, Brian Lowe, Nick Cappadona Project Coordination: Medha Devare, Elaine Guidero, Jaron Turner Content Editors: Medha Devare, Nan Hyland, Jim Morris-Knower, Jill Powell, Deb Schmidle, Gail Steinhart, Kornelia Tancheva, Susanne Whitaker September 21, 2007

  2. What is VIVO? • A Web resource • Single point of access for information on scholarly activity at Cornell • Independent of Cornell’s administrative structure • Search or browse directly or syndicate via web services • An ontology-based application • Represents common university relationships • Patterned on AKT1 and SWRC2 • A framework for ontology-based applications (Vitro) • Jena3 model + ontology editor + simple CMS • Real-time inferencing for a production environment

  3. vivo.cornell.edu

  4. VIVO faculty profile

  5. Sample search in VIVO: “proteom*”

  6. Vitro layered system structure

  7. Current development • Direct import and export of OWL RDF • Maintain class and property provenance from source ontologies • Import or supplement content • Extend the unified model to bridge across domains • Deliver integrated view from multiple distinct data models • Using in-memory Jena model for speed while concurrently maintaining a Jena database persistence layer • Granular authorization controlling direct end-user editing • Cornell single sign-on; others create accounts • Edit own information except that from University databases of record • Allow for proxies • Jena reified statements (in a separate model) to track who did what when

  8. Next steps • Leveraging SPARQL4 or SWRL5 for complex, relationship-based queries • Currently pull content by class and hard-wired filters • Create browse groups or web service filters via SPARQL query • Assigning membership in defined classes by inference • Avoid time-consuming and error-prone manual tagging • Changes reflected in real time using plug-in inference engines (OWLIM6 and/or Pellet7) • Exploring OWL 1.18 and other extensions • “Transitive over” object properties (property chain inclusion axioms) • “Defined properties” (functional data properties, data property assertion) • More flexible filtering and ordering for display, possibly using Fresnel9

  9. Defined classes • Use inferencing from classes, properties, and their values to group and/or filter content

  10. OWL 1.1 property chaining • Data reported by country can be retrieved by region or continent

  11. Future opportunities • Selective and dynamic content integration • Import and manage multiple ontologies or portions thereof, retaining original class and property relationships • Pull in only enough metadata from remote data sources to allow discovery and the desired level of integration, without replicating all content • Build higher-level defined classes and properties to bridge across ontologies within Vitro • Link out to or query remote sources for updated content, statistics, and/or data • eScience, eHumanities • Use Vitro as a front end to Fedora9 and other repository platforms • Create and manage terminology and cross-disciplinary relationships for distributed collections while retaining original metadata schemas • Facilitate blending distributed data resources into scholarly publishing and other academic exchanges

  12. References • AKT http://kmi.open.ac.uk/projects/akt/ref-onto/ • SWRC http://www.aifb.uni-karlsruhe.de/WBS/ysu/publications/2005_swrc_baosw.pdf • Jena http://jena.sourceforge.net • SPARQL http://www.w3.org/TR/rdf-sparql-query/ • SWRL http://www.w3.org/Submission/SWRL/ • OWLIM http://www.ontotext.com/owlim/ • Pellet http://pellet.owldl.com/ • Fresnel http://simile.mit.edu/wiki/Fresnel • Fedora http://www.fedora-commons.org/

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