CTSOC Kickoff Meeting: Difference between revisions
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==Clinical and Translational Science Ontology Consortium (CTSOC)== | ==Clinical and Translational Science Ontology Consortium (CTSOC)== | ||
CTSOC was established in the Spring of | CTSOC was established in the Spring of 2025 to advance the goals of the NIH CTSA initiative by promoting ontology-based interoperability of data within and between CTSA hubs. Barry Smith (Buffalo) and William Hogan (MCW) will serve as Co-Directors. Exploring relations between ontology and AI will be a characteristic of the CTSOC meetings down the road. | ||
==CTSOC Kickoff Meeting, September 17 2025, 10am - 4pm EST)== | ==CTSOC Kickoff Meeting, September 17 2025, 10am - 4pm (EST)== | ||
Venue: Online and [https://www.buffalo.edu/ai-data-science.html Institute for Artificial Intelligence and Data Science], North Campus, University at Buffalo | Venue: Online and in the [https://www.buffalo.edu/ai-data-science.html Institute for Artificial Intelligence and Data Science], North Campus, University at Buffalo | ||
'''Goals''' | '''Goals''' | ||
| Line 25: | Line 25: | ||
Further topic suggestions are welcome. | Further topic suggestions are welcome. | ||
== | ==Program== | ||
'''Morning Session''' | '''Morning Session''' | ||
:10:00 Introduction | :10:00 Introduction | ||
:10:05 Alex Diehl: Applied Biomedical Ontology at UB Biomedical Informatics | :10:05 Alex Diehl (UB): Applied Biomedical Ontology at UB Biomedical Informatics ([https://buffalo.box.com/s/xctppgc53hux11m6kp9we1q4r17n8boi slides] [https://youtu.be/pMwegI_JqMQ video]) | ||
:10:20 Alex Bartnik: MRI Acquisition and Analysis Ontology | :10:20 Alex Bartnik (UB): MRI Acquisition and Analysis Ontology ([https://buffalo.box.com/s/pu00fvhg74emoljg2svtwciabkgsh2pp slides] [https://youtu.be/onWCeRwh-wQ video]) | ||
:10:35 Finn Wilson and Bill Duncan: Pain Ontology | :10:35 Finn Wilson (UB) and Bill Duncan (Florida): Pain Ontology ([https://buffalo.box.com/s/qwco9qh7vex7vhfb2uhgz4wifldiomrs slides] [https://youtu.be/TWHVvG92_Es video]) | ||
:10:50 Ava Cunningham: Transforming the International Classification of Pain into an Ontology | :10:50 Ava Cunningham (UB): Transforming the International Classification of Pain into an Ontology ([https://buffalo.box.com/s/76pj2332xg62gpomd8siu6bmfduw46ak slides] [https://youtu.be/S9mxdJL8Iak video]) | ||
:11:00 '''Coffee Break''' | :11:00 '''Coffee Break''' | ||
:12: | :11:15 Bill Duncan: Ontology of Dental-Care Related Fear and Anxiety (ODFA) ([https://buffalo.box.com/s/a6dwtub7ojqqw5luotltfb6ep62rlqqw slides] [https://youtu.be/PCKZD5ViZDg video]) | ||
:11:30 Elena Milivinti (UB): Integrating Survey Data using ODFA ([https://buffalo.box.com/s/vvkdp3uqyunuqfhpnj725wwsiwolidvo slides] [https://youtu.be/K7AiXeheGvU video]) | |||
:11:40 Regina Hurley (UB): The Injury Ontology ([https://buffalo.box.com/s/1jhxax02y40lyexznoli5u55to95covg slides]) ([https://youtu.be/h2Yq2dzdsj8 video]) | |||
:11:50 Barry Smith and William Hogan: Introduction to the Clinical and Translational Science Ontology Consortium ([https://buffalo.box.com/s/yo11jdu5ht7q8s9kedhnc4wjkv93cej2 slides 1] [https://youtu.be/TO7t7Jwj-N0 video 1] [https://buffalo.box.com/s/ip6l3bl6o6kvjqmkk58slxjflc3g6sjy slides 2] [https://youtu.be/eF0ublX96Ao video 2]) | |||
:12:15 '''Lunch''' | |||
'''Afternoon Session''' | '''Afternoon Session''' | ||
:13:30 Bjoern Peters: Ontology of Biomedical Investigations (OBI) | :13:30 Bjoern Peters (LJI San Diego): Ontology of Biomedical Investigations (OBI) ([https://buffalo.box.com/s/3tihit9z3honvjk3nyh1s72ppp9i81i8 slides] [https://youtu.be/Rqm1dBlv38s video]) | ||
:13:45 Mathias Brochhausen (UAMS): i. OOSTT: Organisation Ontology, ii. Ontology and AI in UAMS | :13:45 Mathias Brochhausen (UAMS): i. OOSTT: Organisation Ontology, ii. Ontology and AI in UAMS ([https://buffalo.box.com/s/kzflvhm9px841uk9ifawsm7qvibnr2nl slides] [https://youtu.be/QU6TnAZsI3w video]) | ||
:14:00 Matt Diller: OGMS: Ontology for General Medical Science | :14:00 Matt Diller (NLM): OGMS: Ontology for General Medical Science ([https://buffalo.box.com/s/cw5kojid7bf8jxijhtan2v5dxgk66opx slides] [https://youtu.be/xbCa9WBKDYc video]) | ||
:14:15 William Hogan (MCW): Ontology of Social Resource Access | :14:15 William Hogan (MCW): Ontology of Social Resource Access ([https://buffalo.box.com/s/j54gsvjanzi9n9kh3w6kh7j46w4ubhlw slides] [https://youtu.be/w6rKKwnKuLk video]) | ||
:14:30 John Beverley: Steps towards an ontology of uses of AI in medicine | :14:30 Yongqun (Oliver) He (UMich): The Vaccine Ontology (VO) ([https://buffalo.box.com/s/h2hicmvjq287jvxdy9o0kdmm5zy99kkk slides] [https://youtu.be/xGEFgPwKWLM video]) | ||
: | :14:45 Anna Maria Masci (MDAnderson): Ontology-driven proposal for clinical AI Evaluation ([https://buffalo.box.com/s/hn5xgss19976h5u224doyeyyp2tzxi38 slides] [https://youtu.be/EHbYd2_jWZc video]) | ||
:15: | :15:00 John Beverley (UB): Steps towards an ontology of uses of AI in medicine ([https://buffalo.box.com/s/wm52ilj2pyco3owog11imx5kwlqmy3tx slides] [https://youtu.be/Kr9WCpQ3llU video]) | ||
:15: | :15:15 Naveed Shah (UB): How to gather data regarding AI usage in medicine across the CTSA ecosystem ([https://buffalo.box.com/s/yqvgwvu4c5g7ek9syuiidhebp8nca9k6 slides] [https://youtu.be/kFYzPmLlDj0 video]) | ||
:16:00 | :15:30 John Beverley (UB): RAG, neurosymbolic and other approaches to the use of ontology in AI ([https://buffalo.box.com/s/wm52ilj2pyco3owog11imx5kwlqmy3tx slides] [https://youtu.be/MGNOnMcMNow video]) | ||
:16:00 '''Close''' | |||
==Participants== | ==Participants== | ||
Alex Bartnik (UB) | Alex Bartnik (UB) | ||
Sam Border (UB) | |||
Mathias Brochhausen (UAMS) | Mathias Brochhausen (UAMS) | ||
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Giacomo De Colle (UB) | Giacomo De Colle (UB) | ||
Gregory DeFranco (UB) | |||
Alex Diehl (UB) | Alex Diehl (UB) | ||
| Line 78: | Line 85: | ||
Peter Elkin (UB) | Peter Elkin (UB) | ||
Natalie Gazzo (UB) | |||
Ali Hasanzadeh (Arizona SU) | |||
Yongqun He (UMichigan Ann Arbor) | Yongqun He (UMichigan Ann Arbor) | ||
| Line 84: | Line 95: | ||
William Hogan (MCW) | William Hogan (MCW) | ||
Anthony Huffman (UMichigan Ann Arbor) | |||
Regina Hurley (UB) | Regina Hurley (UB) | ||
| Line 90: | Line 103: | ||
Austin Liebers (UB) | Austin Liebers (UB) | ||
Chi Hua Lu (UB) | |||
Blaze Marpet (Northwestern U) | |||
Anna Maria Masci (MD Anderson) | Anna Maria Masci (MD Anderson) | ||
| Line 96: | Line 113: | ||
Richard Ohrbach (SDM, UB) | Richard Ohrbach (SDM, UB) | ||
Anuwat Pengput (UB) | |||
Bjoern Peters (La Jolla Institute for Immunology) | Bjoern Peters (La Jolla Institute for Immunology) | ||
Fabrício Henrique Rodrigues (UB) | |||
Alan Ruttenberg (UB) | |||
Richard Scheuermann (NLM Scientific Director) | Richard Scheuermann (NLM Scientific Director) | ||
Alec Sculley (Summit Knowledge Solutions) | |||
Naveed Shah (UB) | Naveed Shah (UB) | ||
Sonia Sharma (SDM, UB) | |||
Barry Smith (UB) | Barry Smith (UB) | ||
Adam Taylor (North Dakota SU) | |||
Finn Wilson (UB) | Finn Wilson (UB) | ||
Latest revision as of 17:16, 20 October 2025
Clinical and Translational Science Ontology Consortium (CTSOC)
CTSOC was established in the Spring of 2025 to advance the goals of the NIH CTSA initiative by promoting ontology-based interoperability of data within and between CTSA hubs. Barry Smith (Buffalo) and William Hogan (MCW) will serve as Co-Directors. Exploring relations between ontology and AI will be a characteristic of the CTSOC meetings down the road.
CTSOC Kickoff Meeting, September 17 2025, 10am - 4pm (EST)
Venue: Online and in the Institute for Artificial Intelligence and Data Science, North Campus, University at Buffalo
Goals
- ● to bring together CTSOC members and to identify potential areas of collaboration
- ● to explore ways in which use of ontologies and of AI technology in the healthcare field might support each other mutually
The program for the meeting will be divided into blocks designed to allow those with common interests to dial-in at different times during the day.
Those wishing to participate -- from within or without the CTSA world -- should contact Barry Smith at phismith@buffalo.edu indicating their areas of interest.
Topics will include:
- ● Current ontology development work in CTSOC member hubs
- ● Creating a CTSOC portal where members can report CTS relevant ontology work, plans, and requests for assistance
- ● RAG, neurosymbolic and other approaches to the use of ontology in AI
- ● Steps towards an ontology of uses of AI in medicine
Further topic suggestions are welcome.
Program
Morning Session
- 10:00 Introduction
- 10:05 Alex Diehl (UB): Applied Biomedical Ontology at UB Biomedical Informatics (slides video)
- 10:20 Alex Bartnik (UB): MRI Acquisition and Analysis Ontology (slides video)
- 10:35 Finn Wilson (UB) and Bill Duncan (Florida): Pain Ontology (slides video)
- 10:50 Ava Cunningham (UB): Transforming the International Classification of Pain into an Ontology (slides video)
- 11:00 Coffee Break
- 11:15 Bill Duncan: Ontology of Dental-Care Related Fear and Anxiety (ODFA) (slides video)
- 11:30 Elena Milivinti (UB): Integrating Survey Data using ODFA (slides video)
- 11:40 Regina Hurley (UB): The Injury Ontology (slides) (video)
- 11:50 Barry Smith and William Hogan: Introduction to the Clinical and Translational Science Ontology Consortium (slides 1 video 1 slides 2 video 2)
- 12:15 Lunch
Afternoon Session
- 13:30 Bjoern Peters (LJI San Diego): Ontology of Biomedical Investigations (OBI) (slides video)
- 13:45 Mathias Brochhausen (UAMS): i. OOSTT: Organisation Ontology, ii. Ontology and AI in UAMS (slides video)
- 14:00 Matt Diller (NLM): OGMS: Ontology for General Medical Science (slides video)
- 14:15 William Hogan (MCW): Ontology of Social Resource Access (slides video)
- 14:30 Yongqun (Oliver) He (UMich): The Vaccine Ontology (VO) (slides video)
- 14:45 Anna Maria Masci (MDAnderson): Ontology-driven proposal for clinical AI Evaluation (slides video)
- 15:00 John Beverley (UB): Steps towards an ontology of uses of AI in medicine (slides video)
- 15:15 Naveed Shah (UB): How to gather data regarding AI usage in medicine across the CTSA ecosystem (slides video)
- 15:30 John Beverley (UB): RAG, neurosymbolic and other approaches to the use of ontology in AI (slides video)
- 16:00 Close
Participants
Alex Bartnik (UB)
Sam Border (UB)
Mathias Brochhausen (UAMS)
Werner Ceusters (UB)
Hunter Clark (UB)
Lindsay Cowell (UTexas Southwestern)
Giacomo De Colle (UB)
Gregory DeFranco (UB)
Alex Diehl (UB)
Matt Diller (NLM)
Federico Donato (UB)
Sebastian Duesing (UB and San Diego)
Bill Duncan (UFlorida)
Peter Elkin (UB)
Natalie Gazzo (UB)
Ali Hasanzadeh (Arizona SU)
Yongqun He (UMichigan Ann Arbor)
Olivia Hobai (UB)
William Hogan (MCW)
Anthony Huffman (UMichigan Ann Arbor)
Regina Hurley (UB)
Jobst Landgrebe (CognoTekt)
Austin Liebers (UB)
Chi Hua Lu (UB)
Blaze Marpet (Northwestern U)
Anna Maria Masci (MD Anderson)
Elena Milivinti (UB)
Richard Ohrbach (SDM, UB)
Anuwat Pengput (UB)
Bjoern Peters (La Jolla Institute for Immunology)
Fabrício Henrique Rodrigues (UB)
Alan Ruttenberg (UB)
Richard Scheuermann (NLM Scientific Director)
Alec Sculley (Summit Knowledge Solutions)
Naveed Shah (UB)
Sonia Sharma (SDM, UB)
Barry Smith (UB)
Adam Taylor (North Dakota SU)
Finn Wilson (UB)
Jinjun Xiong (IAD, UB)
Background information on CTSOC
The CTSOC is successor organization of the CTS Ontology Group, which has held annual meetings on a range of ontology-related topics, summarized here. Interestingly, the [1] final meeting of that group, which featured participants from NVIDIA. was devoted to the topic of Ontologies, AI and Electronic Health Records. Incorporating relations between ontology and AI will be a characteristic of CTSOC interactions down the road.
CTSOC currently involves 8 CTSA hubs:
- ● University of Arkansas for Medical Sciences Translational Research Institute (Arkansas)
- ● University at Buffalo Clinical and Translational Science Institute (Buffalo)
- ● University of Florida Clinical and Translational Science Institute (Florida)
- ● University of Texas Health Science Center at Houston and University of Texas M. D. Anderson Cancer Center Center for Clinical and Translational Sciences (Houston)
- ● Michigan Institute for Clinical and Health Research (Michigan)
- ● UC San Diego Clinical and Translational Research Institute (San Diego)
- ● UT Southwestern Medical Center Clinical and Translational Science Award (Dallas)
- ● Clinical and Translational Science Institute of Southeastern Wisconsin (Milwaukee)
Barry Smith (Buffalo) and William Hogan (Medical College of Wisconsin) will serve as Co-Directors.
Goals of CTSOC
1. Apply the ontology-driven approach to critical areas of CTS where ontology coverage is thus far lacking, including: Clinical and Translational Science Ontology (CTSO), with branches:
- ● Clinical and Translational Science Organization Ontology (CTSOO)
- ● Clinical and Translational Science Impact Ontology (CTSIO)
- ● Social Determinants of Health Ontology (CTSSDHO)
- ● Public Health Ontology (CTSPHO)
- ● Ontology for Uses of AI in CTS (CTSAIO)
2. Explore ways in which the use of ontologies can improve the usability of data at CTSA hubs
3. Explore ways in which the use of ontologies can streamline exchange and integration of data between CTSA hubs in ways that will promote Findability, Accessibility, Interoperability and Reuse (= FAIRness) of digital assets and thereby manifesting a commitment to the CTSA open science principles
4. Conduct translational science on the ways in which these ontology-based approaches compare to existing common data elements approaches in use by CTSA hubs.
