CTS Ontology Workshop 2015: Difference between revisions
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<font size="+3">Ontology in Practice</font> | <font size="+3">Ontology in Practice</font> | ||
<font size="+2">The Fourth Clinical and Translational Science Ontology Workshop</font> | |||
For the 2023 meeting please see [[CTS Ontology Workshop 2023]]. | |||
<font size="+2">September 23 - 25, Charleston, SC</font> | <font size="+2">September 23 - 25, Charleston, SC</font> | ||
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Ends: Fri 9/25/2015 3pm | Ends: Fri 9/25/2015 3pm | ||
</font> | </font> | ||
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== Agenda == | == Agenda == | ||
[http://ncor.buffalo.edu/2015/CTSO/CTS_Ontology_booklet.pdf Conference Brochure] | |||
'''Evening before the Conference: Wed 9/23/15 ''' | |||
6:00pm - 7:00pm | 6:00pm - 7:00pm | ||
* '''Evening reception | * '''Evening reception ''' | ||
<font size="+1" style="color: blue">'''Day 1: Thu 9/24/15'''</font> | <font size="+1" style="color: blue">'''Day 1: Thu 9/24/15'''</font> | ||
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* '''Fast Healthcare Interoperability Resources''' [http://wiki.hl7.org/index.php?title=FHIR_Ontology_Requirements (FHIR)] | * '''Fast Healthcare Interoperability Resources''' [http://wiki.hl7.org/index.php?title=FHIR_Ontology_Requirements (FHIR)] | ||
** David Booth (FHIR): An introduction to FHIR [https://goo.gl/RNfUai Slides] | ** David Booth (FHIR): An introduction to FHIR [https://goo.gl/RNfUai Slides] | ||
** Barry Smith (Buffalo): FHIR and Ontology [http://ncor.buffalo.edu/2015/CTSO/Smith.pptx Slides] | ** Barry Smith (Buffalo): FHIR and Ontology [http://ncor.buffalo.edu/2015/CTSO/Smith.pptx Slides] [https://www.youtube.com/watch?v=LV_DZvhGoJQ Video] | ||
::Background: [http://www.interfaceware.com/blog/taking-fhir/ FHIR]; [http://hl7-fhir.github.io/rdf.html FHIR-rdf]; [http://yosemiteproject.org/2015/webinars/fhir-rdf/ The Yosemite Project] | ::Background: [http://www.interfaceware.com/blog/taking-fhir/ FHIR]; [http://hl7-fhir.github.io/rdf.html FHIR-rdf]; [http://yosemiteproject.org/2015/webinars/fhir-rdf/ The Yosemite Project] | ||
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** Peter Elkin (Buffalo): Ontologies driving EHRs [http://ncor.buffalo.edu/2015/CTSO/Elkin.pptx Slides] | ** Peter Elkin (Buffalo): Ontologies driving EHRs [http://ncor.buffalo.edu/2015/CTSO/Elkin.pptx Slides] | ||
** Jonathan P. Bona (Buffalo): Toward replacing EHR structured data with explicit representations [http://ncor.buffalo.edu/2015/CTSO/bona.pdf Slides] | ** Jonathan P. Bona (Buffalo): Toward replacing EHR structured data with explicit representations [http://ncor.buffalo.edu/2015/CTSO/bona.pdf Slides] | ||
** Suzette Stoutenburg (MITRE): Applying Semantic Technology for Enhanced Electronic Health Record (EHR) Visualization | ** Suzette Stoutenburg (MITRE): Applying Semantic Technology for Enhanced Electronic Health Record (EHR) Visualization [http://ncor.buffalo.edu/2015/CTSO/Stoutenburg.pptx Slides] | ||
12:00-1:00 '''Lunch''' | 12:00-1:00 '''Lunch''' | ||
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* '''Ontology and biobanking''' | * '''Ontology and biobanking''' | ||
** Helen Moore, Ping Guan (NIH/NCI): [http://biospecimens.cancer.gov/newsevents/news/07172015.asp CDR, an NCI-developed vocabulary and database for biobanking] [http://ncor.buffalo.edu/2015/CTSO/Moore.ppt Slides] | ** Helen Moore, Ping Guan (NIH/NCI): [http://biospecimens.cancer.gov/newsevents/news/07172015.asp CDR, an NCI-developed vocabulary and database for biobanking] [http://ncor.buffalo.edu/2015/CTSO/Moore.ppt Slides] | ||
** 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] [http://ncor.buffalo.edu/2015/CTSO/Ellis.pdf Slides] | ||
** Chris Stoeckert, Jie Zheng (Penn): and Mathias Brochhausen (Arkansas): The [http://www.ontobee.org/browser/index.php?o=OBIB OBIB] Ontology for Biobanking [http://ncor.buffalo.edu/2015/CTSO/Stoeckert.pptx Slides] | ** Chris Stoeckert, Jie Zheng (Penn): and Mathias Brochhausen (Arkansas): The [http://www.ontobee.org/browser/index.php?o=OBIB OBIB] Ontology for Biobanking [http://ncor.buffalo.edu/2015/CTSO/Stoeckert.pptx Slides] | ||
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** Dave Eichmann (University of Iowa): The Pragmatics of Ontology and Heterogeneous Data Sources: the Ins and Outs of [http://research.icts.uiowa.edu/polyglot/ CTSAsearch] [http://ncor.buffalo.edu/2015/CTSO/Eichmann.pptx Slides] | ** Dave Eichmann (University of Iowa): The Pragmatics of Ontology and Heterogeneous Data Sources: the Ins and Outs of [http://research.icts.uiowa.edu/polyglot/ CTSAsearch] [http://ncor.buffalo.edu/2015/CTSO/Eichmann.pptx Slides] | ||
** Geoff Low (Medidata Solutions): From PDF to RDF - Representing the CDISC Foundational Standards [http://ncor.buffalo.edu/2015/CTSO/Low.pptx Slides] | ** Geoff Low (Medidata Solutions): From PDF to RDF - Representing the CDISC Foundational Standards [http://ncor.buffalo.edu/2015/CTSO/Low.pptx Slides] | ||
** Sriram Sridhar and Santosh Srinivasaiah (BAH) Enhancing Scientific and Clinical Data Management Using Semantic Technologies | ** Sriram Sridhar and Santosh Srinivasaiah (BAH) Enhancing Scientific and Clinical Data Management Using Semantic Technologies [http://ncor.buffalo.edu/2015/CTSO/Sridhar.pdf Slides] | ||
** Closing remarks | ** Closing remarks | ||
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Farkas, Csilla (University of SC) | Farkas, Csilla (University of SC) | ||
Frey, Lewis (MUSC) | |||
Gibson, Bryan (University of Utah) | Gibson, Bryan (University of Utah) | ||
Latest revision as of 15:05, 18 November 2022
Ontology in Practice
The Fourth Clinical and Translational Science Ontology Workshop
For the 2023 meeting please see CTS Ontology Workshop 2023.
September 23 - 25, Charleston, SC
Venue
The Francis Marion Hotel • 387 King Street, Charleston, SC 29403
Starts: Wed 9/23/15 at 6pm with an optional reception. The workshop begins at 8am Thu 9/24/15.
Ends: Fri 9/25/2015 3pm
Goals
The goal of this meeting is to examine the benefits of and barriers to the use of ontologies and semantic web infrastructure in support of real-world applications in clinical care and translational research.
Day 1 (before noon) will focus on how ontologies are being used in EHR interoperability.
Day 1 (afternoon) and Day 2 will focus on applications in translational research.
Our Sponsors
Agenda
Evening before the Conference: Wed 9/23/15
6:00pm - 7:00pm
- Evening reception
Day 1: Thu 9/24/15
8:00-9:45
- Fast Healthcare Interoperability Resources (FHIR)
- Background: FHIR; FHIR-rdf; The Yosemite Project
9:45-10:00 Break
10:00-12:00
- EHR and ontology
12:00-1:00 Lunch
1:00-2:30
- Ontology practices
2:30-2:45 Break
2:45-4:15
- Ontology and biobanking
- Helen Moore, Ping Guan (NIH/NCI): CDR, an NCI-developed vocabulary and database for biobanking Slides
- Helena Ellis (Duke): Biobank terminology in practice Slides
- Chris Stoeckert, Jie Zheng (Penn): and Mathias Brochhausen (Arkansas): The OBIB Ontology for Biobanking Slides
7:00-9:00 Dinner (separate registration - Optional.) #More Information below.
Day 2: Fri 9/25/2015
8:00-9:45
- Practical examples of ontology use
- Alexander Diehl (Buffalo): Using an applied neurology ontology framework for analysis of MS patient data Slides
- Aaron Abend (AARDA, Inc): Developing an Ontology for Autoimmune Disease: A key step to a unified view of autoimmune disease Slides
- Csilla Farkas (University of SC): Medical Data Protection: Semantics-Aware Security Policies
9:45-10:00 Break
10:00-12:00
- Consents & medical practice documents
- Frank J. Manion and Marcelline R. Harris (Michigan): Informed Consent Ontology Slides
- Asiyah Yu Lin (Michigan/FDA): Informed Consent Ontology with focus on Vaccine Informed Consent Ontology (VICO) Slides
- Mathias Brochhausen (Arkansas) Documents and Document Acts Slides
12:00-1:00 Lunch
1:00-3:00
- Clinical and Translational Science Relevant projects
- Dave Eichmann (University of Iowa): The Pragmatics of Ontology and Heterogeneous Data Sources: the Ins and Outs of CTSAsearch Slides
- Geoff Low (Medidata Solutions): From PDF to RDF - Representing the CDISC Foundational Standards Slides
- Sriram Sridhar and Santosh Srinivasaiah (BAH) Enhancing Scientific and Clinical Data Management Using Semantic Technologies Slides
- Closing remarks
Participant list
Abend, Aaron (AARDA Inc)
Arabandi, Sivaram (OntoPro)
Awaysheh, Abdullah (Virginia Tech)
Bona, Jonathan (University at Buffalo)
Booth, David (FHIR)
Boyles, Rebecca (NIE Health Sciences Inst.)
Brochhausen, Mathias (University of Arkansas (Med Sci))
Carson, Matthew (Northwestern University)
Daniels, Mark (MUSC)
Diehl, Alexander (University at Buffalo)
Dolan, Mary (The Jackson Laboratory)
Duncan, Bill (Regenstrief Institute)
Eichmann, David (Univ at Iowa)
Elkin, Peter (University at Buffalo)
Ellis, Helena (Duke University)
Esposito, John (TriNetX)
Facelli, Julio (University of Utah)
Farinelli, Fernanda (Univ at Buffalo)
Farkas, Csilla (University of SC)
Frey, Lewis (MUSC)
Gibson, Bryan (University of Utah)
Guan, Ping (Nat. Cancer Institutes)
Habrat, Melissa (MUSC)
Hammond, William E. (Duke University)
Hanna, Joshua (University of Florida)
Harris, Marcy (University of Michigan)
Hicks, Amanda (University of Florida)
Hogan, William (University of Florida)
Holmgren, Stephanie (NIH)
Jansen, Ludger (Univ of Rostock)
Kamerick, Michael (TrinetX Inc)
Landis-Lewis, Zach (Univ of Michigan)
Larsen, Rick (HSSC)
Lin, Asiyah Yu (University of Michigan Ann Arb)
Low, Geoffrey (Medidata Solutions UK)
Manion, Frank J. (University of Michigan)
Marshall, Elizabeth (MUSC)
Masci, Anna Maria (Duke University)
Meeks, Eric (University of California-SF)
Mockus, Susan (Jackson Lab Farmington CT)
Moore, Helen (National Cancer Institutes)
Natale, Darren (Georgetown University)
Obeid, Jihad (MUSC)
Richesson, Rachel (Duke University)
Rodman, Daniel (University at Buffalo)
Schick, Lisa (Samvit Solutions)
Seppälä, Selja (University at Buffalo)
Smith, Barry (University at Buffalo)
Soergel, Dagobert (University at Buffalo)
Sridhar, Sriram (BAH)
Srinivasaiah, Santosh (BAH)
Steele, Robert (MUSC)
Stoeckert, Christian (University of Pennsylvania)
Stoutenburg, Suzette (MITRE Corporation)
Stratman, Jennifer (Duke University )
Welch, Brandon (MUSC)
Xu, Julia (NYU)
Zheng, Jie (University of Pennsylvania)
Zhu, Vivienne (MUSC)
Organizing Committee
Barry Smith (University at Buffalo)
William Hogan (University of Florida)
Jihad Obeid (Medical University of South Carolina) (Chair)
More Information
The Charleston Blues & BBQ Harbor Cruise starts at 7pm on Thursday 9/24 night and includes dinner. This trip is optional and requires a separate registration directly with Charleston Harbor Tours. To get the group rate of $38.95 please call 843-722-1112 and use the Group Rate for "MUSC Biomedical Informatics". Note that registration online at their site will NOT give you the group rate.
More info at Harbor Cruise and Thursday Night Dinner
