CTS Ontology Workshop 2015: Difference between revisions

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8am-noon
8am-noon
* FHIR  
* '''Fast Healthcare Interoperability Resources''' [http://wiki.hl7.org/index.php?title=FHIR_Ontology_Requirements (FHIR)]
** David Booth (FHIR): An introduction to FHIR
** David Booth (FHIR): An introduction to FHIR
** Barry Smith (Buffalo): Ontology for FHIR
** Barry Smith (Buffalo): Ontology for FHIR


1pm-3pm
1pm-3pm
* EHR and ontology
* '''EHR and ontology'''
** Peter Elkin (Buffalo): Ontologies driving EHRs
** Peter Elkin (Buffalo): Ontologies driving EHRs
** Bill Hogan and Amanda Hicks (Florida): Continuity of Care Document & RDF/OWL
** Bill Hogan and Amanda Hicks (Florida): Continuity of Care Document & RDF/OWL


3:30-5:30   
3:30-5:30   
* Biobanks
* '''Ontology and biobanking'''
** Chris Stoeckert, Jie Zheng (Penn) and Mathias Brochhausen (Arkansas): The [http://www.ontobee.org/browser/index.php?o=OBIB OBIB] Ontology for Biobanking  
** Chris Stoeckert, Jie Zheng (Penn) and Mathias Brochhausen (Arkansas): The [http://www.ontobee.org/browser/index.php?o=OBIB OBIB] Ontology for Biobanking  
** Helena Ellis (Duke): [http://biobank.duke.edu/biobanking-informatics/labvantage-biobanking-information-management-system Biobank terminology in practice]
** Helena Ellis (Duke): [http://biobank.duke.edu/biobanking-informatics/labvantage-biobanking-information-management-system Biobank terminology in practice]
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8am-noon
8am-noon
* '''Practical examples of ontology use'''
* '''Practical examples of ontology use'''
** Alexander Diehl (Buffalo): Using an applied neurology ontology framework for analysis of MS patient data
** Alexander Diehl (Buffalo): Using an applied neurology ontology framework for analysis of MS patient data
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1pm to 3pm
1pm to 3pm
* Wrapup session addressing issues of specific relevance to the Clinical and Translational Science Consortium
* '''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
** 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)  
** Interoperability between OBO foundry and other ontologies and (e.g. SNOMED, LOINC, NCI Thesaurus, ICD-9/10, RxNorm)  

Revision as of 15:12, 20 June 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.

Themes

  1. FHIR and Ontology
  2. Making ontologies work in real world use cases
  3. Modifying or adopting existing ontologies
  4. Practical benefits -- and disbenefits -- of using ontologies
  5. Mapping terminologies to ontologies; Automated classification/annotation/NLP

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

  • Fast Healthcare Interoperability Resources (FHIR)
    • David Booth (FHIR): An introduction to FHIR
    • Barry Smith (Buffalo): Ontology for FHIR

1pm-3pm

  • EHR and ontology
    • Peter Elkin (Buffalo): Ontologies driving EHRs
    • Bill Hogan and Amanda Hicks (Florida): Continuity of Care Document & RDF/OWL

3:30-5:30

  • Ontology and biobanking
    • Chris Stoeckert, Jie Zheng (Penn) and Mathias Brochhausen (Arkansas): The OBIB Ontology for Biobanking
    • Helena Ellis (Duke): Biobank terminology in practice
    • James Overton (Knocean): Pathology Imaging Ontology

Day 2

8am-noon

  • Practical examples of ontology use
    • Alexander Diehl (Buffalo): Using an applied neurology ontology framework for analysis of MS patient data
    • Alan Ruttenberg (Buffalo): Using Semantic Web tools to analyse ontology-structured dental records
  • Consents & medical practice documents

1pm to 3pm

  • 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)

David Booth (FHIR)

Mathias Brochhausen (University of Arkansas for Medical Sciences)

Alex Diehl (University at Buffalo)

Peter Elkin (University at Buffalo)

Helena Ellis (Duke University)

Amanda Hicks (University of Florida)

William Hogan (University of Florida)

Ludger Jansen (University of Rostock)

Jihad Obeid (Medical University of South Carolina)

James Overton (Knocean)

Alan Ruttenberg (University at Buffalo)

Barry Smith (University at Buffalo)

Dagobert Sorgel (University at Buffalo)

Chris Stoeckert (University of Pennsylvania)

Asiyah Yu Lin (University of Michigan, Ann Arbor)

Jie Zheng (University of Pennsylvania)

Organizing Committee

Barry Smith (University at Buffalo)

William Hogan (University of Florida)

Jihad Obeid (Medical University of South Carolina) (Chair)

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