Difference between revisions of "Introduction to Bio-Ontologies and Their Applications"
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This section will provide an introduction to biomedical ontology with a focus on illustrations of success stories in the application of ontologies to supporting specific kinds of research. | This section will provide an introduction to biomedical ontology with a focus on illustrations of success stories in the application of ontologies to supporting specific kinds of research. | ||
| − | * 2:30pm NCBO Web Services and Development of Semantic Applications (Trish Whetzel) | + | * 2:30pm NCBO Web Services and Development of Semantic Applications (Trish Whetzel). Overview presentation of NCBO Web services and how they are being incorporated into software applications. |
| + | ** Introduction to REST Web services | ||
| + | ** [http://bioportal.bioontology.org NCBO BioPortal] | ||
| + | ** NCBO REST Web services | ||
| + | *** [http://www.bioontology.org/wiki/index.php/NCBO_REST_services Ontology Web services] - Search, Traverse, Download | ||
| + | *** [http://www.bioontology.org/wiki/index.php/View_Extraction View Extraction Web service] - Subset | ||
| + | *** [http://www.bioontology.org/wiki/index.php/Ontology_Notes Notes Web service] - Propose Terms, Comment | ||
| + | *** [http://www.bioontology.org/wiki/index.php/BioPortal_Mappings_Service Mapping Web services] - Create, Upload, Download | ||
| + | *** [http://www.bioontology.org/wiki/index.php/NCBO_Widgets Widgets] - Tree view, Auto-complete, Graph view | ||
| + | *** [http://www.bioontology.org/wiki/index.php/Annotator_Web_service Annotation] - Ontology Term recognition | ||
| + | *** [http://www.bioontology.org/wiki/index.php/Resource_Index Data Access] - Fetch ontology-indexed data | ||
| + | ** [http://www.bioontology.org/wiki/index.php/SPARQL_BioPortal BioPortal SPARQL Endpoint] - Access Ontologies via SPARQL | ||
| − | |||
* 4:00pm Use of ontologies in biomedical research (Nigam Shah) | * 4:00pm Use of ontologies in biomedical research (Nigam Shah) | ||
Links: http://bioportal.bioontology.org/ | Links: http://bioportal.bioontology.org/ | ||
Revision as of 16:28, 7 February 2012
The National Center for Biomedical Ontology will hold an Introduction and Application of Bio-Ontologies tutorial as part of its series of training and dissemination events.
- Date: Tutorial: March 15, 2012
- Organization: Barry Smith (NCBO / Buffalo), Trish Whetzel (NCBO / Stanford University), and Nigam Shah (NCBO / Stanford University)
- Registration: Please write to Barry Smith
- Audience: Some background in bioinformatics or medical informatics is required. No knowledge of ontology is presupposed.
Agenda:
- 1:00pm What is an ontology and what is it useful for? (Barry Smith)
This section will provide an introduction to biomedical ontology with a focus on illustrations of success stories in the application of ontologies to supporting specific kinds of research.
- 2:30pm NCBO Web Services and Development of Semantic Applications (Trish Whetzel). Overview presentation of NCBO Web services and how they are being incorporated into software applications.
- Introduction to REST Web services
- NCBO BioPortal
- NCBO REST Web services
- Ontology Web services - Search, Traverse, Download
- View Extraction Web service - Subset
- Notes Web service - Propose Terms, Comment
- Mapping Web services - Create, Upload, Download
- Widgets - Tree view, Auto-complete, Graph view
- Annotation - Ontology Term recognition
- Data Access - Fetch ontology-indexed data
- BioPortal SPARQL Endpoint - Access Ontologies via SPARQL
- 4:00pm Use of ontologies in biomedical research (Nigam Shah)