semantic infrastructure to enable collaboration in ontology development
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Semantic Infrastructure to Enable Collaboration in Ontology DevelopmentPresenter: Paul R. AlexanderAuthors: Paul R. Alexander, Csongor Nyulas, Tania Tudorache,Patricia L. Whetzel, Natalya F. Noy, Mark A. MusenStanford Center for Biomedical Informatics Research, Stanford University, US
2011 International Conference on Collaboration Technologies and SystemsSemantic Technologies for Information-Integrated CollaborationWednesday, May 25 2011
Notes Primer
Introduction
What is an ontology?
Ontology development and publication
Problems working together
Notes and provisional terms
Conclusion
What is an Ontology?
Ontology Development
Editing
Protégé, WebProtégé
Publishing
BioPortal
Biomedical Resource Ontology
MIAMExpress
Gene Ontology
Notes Use Cases
Consensus-building (BRO)
New term requests (MIAMExpress, Phenex)
Data annotation (GO)
Automated requests (ODIE)
Requirements for Notes
Comprised of structured information
Accessed via REST web service
Placed into an archived state
Extended via domain-specific notes types
Types of Notes
Notes APIs
Notes UsageComments/Requests
Notes UsageEditor Workflow
Notes UsageEditor Workflow
Provisional Terms
Requirements for Provisional Terms
Term creation
Query and filter
Get implemented term
Future Work
Further integration of BioPortal and WebProtégé
Automation support for editors
Full-fledged ‘Term Marketplace’
Conclusion
Ontology-based architecture to support collaboration and feedback
Service-oriented, RESTful architecture allows multiple systems to access a common store
Provisional terms enable immediate use
http://bioportal.bioontology.orghttp://protege.stanford.edu
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