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   11th Intl. Protégé Conference - June 23-26, 2009 - Amsterdam, Netherlands
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Conference schedule subject to change. Contact the conference organizers with questions (protege-conf-organizers AT lists DOT stanford DOT edu).

Tuesday - Wednesday - Thursday - Friday

Tuesday, June 23
Registration (8:00 - 9:00a)
Tutorials & Workshops (9:00 - 10:30a)
Introduction to OWL

Protégé Staff
Properties and Individuals in OWL: Reasoning About Family History

Stevens, Jupp

Slides & Example Ontologies
Challenges of Developing and Deploying Large Scale Biomedical Terminologies


Slides (Introduction, Ronald Cornet)
Slides (ICD11, Bedirhan Üstün)
Slides (SAGE, Samson Tu)
Slides (SNOMED CT, Ronald Cornet)
Slides (NCI Thesaurus, Fragoso & De Coronado)
Break (10:30 - 11:00a)
Tutorials & Workshops (11:00 - 12:30p)
Introduction to OWL

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Properties and Individuals in OWL...

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Challenges of Developing and Deploying...

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Lunch (12:30 - 2:00p)
Tutorials & Workshops (2:00 - 3:30p)
Introduction to OWL

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Understanding and Repairing Inferences

Collaborative Ontology Development with Protégé

Tudorache, Vendetti, Noy, Redmond

Break (3:30 - 4:00p)
Tutorials & Workshops (4:00 - 5:30p)
SWRLTab Tutorial


Developing Protégé 4 Plug-ins

Drummond, Horridge, Redmond
JessTab Tutorial


Slides & Sample Code

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Wednesday, June 24
Registration (8:00 - 9:00a)
Session 1: Introduction
9:00-9:15a Introduction, Ronald Cornet (Universiteit van Amsterdam, Netherlands)
Presentation Slides
9:15-10:15a State of Protégé, Mark Musen (Stanford University, USA)
Presentation Slides
Break (10:15 - 10:40a)
Session 2: Collaboration and the Web
10:40-11:00a Ideas for Collaborative Ontology Development on the Upcoming Web 3.0, Matthias Loskyll (Saarland University, Germany)
Abstract, Presentation Slides
11:00-11:20a Hands-on experiences in concurrent ontology building with Collaborative Protégé, Daniel Schober (University Clinic, Freiburg, Germany)
Abstract, Presentation Slides
11:20-11:40a WebProtégé – Protégé going Web, Tania Tudorache (Stanford University, USA)
Abstract, Presentation Slides
11:40-12:00p Building Web Applications with Protégé, Csongor Nyulas (Stanford University, USA)
Abstract, Presentation Slides
Lunch (12:00 - 1:30p)
Session 3: Applications
1:30-1:50p NCBO BioPortal:  A Web Repository for Biomedical Ontologies and Data Resources, Natasha Noy (Stanford University, USA)
1:50-2:10p User Experience, Ambient Intelligence, and Virtual Reality in an Industrial Maintenance Domain using Protégé, Carlos Toro (VICOMTech, Spain)
Abstract, Presentation Slides
Short Break (2:10 - 2:20p)
Session 4: Terminology: Curation and Quality Assurance
2:20-2:40p Protégé 3.4 Plug-in for Editing and Maintaining the NCI Thesaurus, Sherri de Coronado (National Cancer Institute, USA)
Abstract, Presentation Slides
2:40-3:00p Term Analysis for Ontology Quality Assurance, Karin Verspoor (University of Colorado Denver, USA)
Abstract, Presentation Slides
Short Break (3:00 - 3:10p)
Session 5: Quick demos
3:10-4:10p Quick demos
Short Break (4:10 - 4:30p)
Session 6: Posters and Demos (4:30 - 6:00p)      Refreshments will be provided!
Conference Banquet (7:30 - 10:30p)

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Thursday, June 25
Session 7: Invited Talk
9:00-10:00a Guus Schreiber (VU University Amsterdam, Netherlands)
Presentation Slides
Break (10:00 - 10:30a)
Session 8: Biomedical Applications
10:30-10:50a Utilizing NCBO Tools to Develop an ECG Ontology, Steven Granite (Johns Hopkins University, USA)
Abstract, Presentation Slides
10:500-11:10a OCRe: An Ontology of Clinical Research, Samson W. Tu (Stanford University, USA)
Abstract, Presentation Slides
11:10-11:30a Translation Protégé Knowledge for Executing Clinical Guidelines, Jeong Ah Kim (Kandong University, Korea)
Abstract, Presentation Slides
11:30-11:50p Quantitative Cross-Species Comparison of GO Annotations: Advantages and Limitations of Semantic Similarity Measure, Olivier Dameron (Universite de Rennes, France)
Abstract, Presentation Slides
Lunch (11:50 - 1:30p)
Session 9: Tool and Extensions
1:30-1:50p A Reasoning Broker Framework for Protégé, Jürgen Bock (University of Karlsruhe, Germany)
Abstract, Presentation Slides
1:50-2:10p A Protégé 4 Backend for Native OWL Persistence, Joachim Kleb (University of Karlsruhe, Germany)
Abstract, Presentation Slides
2:10-2:30p Multi-view Ontology Visualization, Julia Dmitrieva (Universiteit Leiden, Netherlands)
2:30-2:50p Simulation Modeling using Protégé, Henrik Eriksson (Linköping University, Sweden)
Abstract, Presentation Slides
Break (2:50 - 3:20p)
Session 10: More Tools and Extensions
3:20-3:40p OLS2OWL – A Repository Management Facility, Alexander García-Castro (Bremen University, Germany)
3:40-4:00p Importing Data into Protégé-OWL , Martin O'Connor (Stanford University, US)
Abstract, Presentation Slides
4:00-4:20p Exploring Microarray Time Series with Protégé, Guenter Tusch (Grand Valley State University, USA)
Short Break (4:20 - 4:30p)
Session 11: Panel discussion: protege-discussion Live! (4:30 - 5:30p)

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Friday, June 26
Session 12: Invited Talk
9:00-10:00a Frank van Harmelen (VU University Amsterdam, Netherlands)
Presentation Slides
Break (10:00 - 10:20a)
Session 13: Privacy, Meta-models, and the Future
10:20-10:40a Ontology-Based Privacy Compliance on European Health Domains, Hanene Boussi Rahmouni (Bristol Institute of Technology, UK)
10:40-11:00a Reasoning about Access-Control-Situations with OWL, Timothy Redmond (Stanford University, USA)
11:00-11:20a Integrating Ontology Models and Conceptual Models using a Meta Modeling Approach, Hans-Georg Fill (University of Vienna, Austria)
Abstract, Presentation Slides
11:20-11:40a MESAM: A Protégé Plug-in for the Specialization of Models, Nadjet Zemirline (SUPELEC, France)
Abstract, Presentation Slides
11:40-12:00p The Future of Protégé, Timothy Redmond (Stanford University, US)
12:00-12:20p Wrap-up (open discussion), Protégé Staff

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