BioPortal demo from ICBO 2009

1. Web Services for Semantic Applications
in Healthcare and Life Sciences
Trish Whetzel

2. RESTful Web Services
• Accessed via HTTP
• Each unique URL is a representation of some
object
• Operations include GET, POST, PUT, DELETE
• Lightweight, easy to build

3. Web Services

4. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

5. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

6. BioPortal
• Ontology repository
– Browse, search, and visualize ontologies
– OBO format, OWL, Protégé frames
• Community evaluation
– Reviews, Notes, Projects
• Text annotation
• http://bioportal.bioontology.org

7. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

8. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

9. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

10. Ontology Web Services
UI Browser Code Widget
Access Demo Demo
Search Demo Demo
Annotate Demo Demo
Hierarchy Demo

11. Ontology term selection in the
ISAcreator editor
A ‘user-friendly’ standalone Java application that assists the experimentalists to annotate
the experimental metadata. Depending on the configuration (set via the ISAconfigurator
tool), certain fields prompt a pop-up browser to search and select terms from ontologies
that are accessed in real time via the Ontology Lookup Service and BioPortal.

12. Automated recognition of ontology terms and database IDs before
publication with manual curation by author Word 2007 add-in

13. BioLit web resource: automated recognition of ontology terms and
database IDs after publication http://biolit.ucsd.edu

14. Web Interface Functionality
• Functionality implemented:
– Integrates the ECG workflows into one unified workflow
• Accepts ECG formats workflows processed and stores in WFDB
• Allows for in-memory translation to HL7aECG
– Extends the capability of scrolling visualization of the ECG
• Allows for annotation within the waveform, leveraging NCBO REST
Services real-time
• Prototype ECG Widget Demo

15. http://www.bioontology.org/wiki/index.php/
Using_NCBO_Technology_In_Your_Project
support@bioontology.org