CTS Ontology Workshop 2015

Ontology in Practice

The Fourth Clinical and Translational Science Ontology Workshop

September 23 - 25, Charleston, SC

Venue

The Francis Marion Hotel • 387 King Street, Charleston, SC 29403

Starts: Wed 9/23/15 at 5pm with an optional reception. The workshop begins at 8am Thu 9/24/15.

Ends: Fri 9/25/2015 3pm

Registration

Registration is now open.

There is a $80 registration fee to support venue expenses and conference meals.

• Please register here: https://sctrweb2.musc.edu/CTS_Ontology_Registration.html

• Hotel group rate booking: https://bookings.ihotelier.com/bookings.jsp?groupID=1419298&hotelID=76320

Themes

1. Adoption of Ontologies: Making ontologies work in real world use cases; Modifying or adopting existing ontologies; Addressing challenges in ontology technology
2. Ontologies in practice for electronic health records (EHR)
3. Methods in Ontologies for Real-World Applications: Mapping terminologies to ontologies; Automated classification/annotation/NLP.
4. FHIR and Ontology

Sub-themes

• Using ontologies for electronic data capture.
• Ontologies for biobanking and informed consents.
• Automated annotation, automated classification, clinical (or other) notes NLP, are some ontologies are better for NLP than others?
• In the medical space: ontology and HL7 Fast Healthcare Interoperability Resources (FHIR); Ontology and LOINC.
• Work on merging LOINC, SNOMED-CT and RxNorm; Leveraging Basic Formal Ontology (BFO).
• Ontology portals: connecting ontologies, using ontologies in non-redundant comprehensive manner, separating the wheat from the chaff, promoting ontology reuse.
• Bridging research resources and expertise using ontologies.
• Licensing issues in adoption of ontologies or terminologies.

Draft Agenda

Day 0

• Evening reception

Day 1 8am-noon

1. FHIR
   • David Booth (FIHR): An introduction to FIHR
   • Barry Smith (Buffalo): Ontology for FIHR

1pm-3pm

1. EHR and ontology
   • Peter Elkin (Buffalo): Ontologies driving EHRs
   • Bill Hogan and Amanda Hicks (Florida): CCD doc & RDF, OWL formats

3:30-5:30 Biobanks

1. • Chris Stoeckert, Jie Zheng (Penn) and Mathias Brochhausen (Arkansas): The OBIB Ontology for Biobanking
   • Helena Ellis (Duke): [http://biobank.duke.edu/biobanking-informatics/labvantage-biobanking-information-management-system Biobank terminology in practice}
   • James Overton (Knocean): Pathology Imaging Ontology

Day 2 8am-noon

1. Consents & medical practice documents
   • ICO/VICO Asiyah
   • ICO: Frank and Marci (tentative)
   • D-ACTS: Mathias

1pm to 3pm

1. Wrapup session addressing issues of specific relevance to the Clinical and Translational Science Consortium
   • VIVO/eagle-i/ VIVO-ISF/ and LOD: role in CTS project evaluation
   • Interoperability between OBO foundry and other ontologies and (e.g. SNOMED, LOINC, NCI Thesaurus, ICD-9/10, RxNorm)
   • CDISC to RDF for clinical trials

Other Topics Being Considered

• NLP approaches
• FHIR
• Merging ontologies
• Ontology portals
• Licensing issues
• Linked Open Data (LOD) & VIVO

Participants will include

Sivaram Arabandi (OntoPro)

Mathias Brochhausen (University of Arkansas for Medical Sciences)

Peter Elkin (University at Buffalo)

William Hogan (University of Florida)

Ludger Jansen (University of Rostock)

Jihad Obeid (Medical University of South Carolina)

Barry Smith (University at Buffalo)

Dagobert Sorgel (University at Buffalo)

Asiyah Yu Lin (University of Michigan, Ann Arbor)

Amanda Hicks (University of Florida)

Organizing Committee

Barry Smith (University at Buffalo)

William Hogan (University of Florida)

Jihad Obeid (Medical University of South Carolina)