Difference between revisions of "AI and Complex Systems in Biomedicine"

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9a-12p Working session and discussion of next steps, closing
 
9a-12p Working session and discussion of next steps, closing
  
10:45a: Introduction to CRO - Presenter: Frank Manion
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*Frank Manion, '''The Common Rule Ontology'''
  
11:00a: Introduction to D-acts - Presenter: Mathias Brochhausen
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*Mathias Brochhausen, '''Introduction to D-acts: The Document Act Ontology
  
11:15a: Use cases - Facilitator: Mathias Brochhausen
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*Use cases - Facilitator: Mathias Brochhausen
  
 
'''12:00a''': Close
 
'''12:00a''': Close

Revision as of 14:16, 12 February 2022

Eighth Clinical and Translational Science Award Ontology Workshop Eighth Clinical and Translational Science Ontology Workshop

Eighth Clinical and Translational Science Award Ontology Workshop

Announcement

The Clinical and Translational Science Ontology Group (CTSOG) invites you to join us March 16-18, 2022 in Orlando, Florida to discuss AI, Complex Systems in Biomedicine, and the role of ontology both in tempering the expectations of AI and advancing it to goals it can achieve. For example, we hear things all the time like “Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this workshop is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Example topics include:

  • Can NLP build useful medical ontologies?
  • Machine learning and the role of ontology
  • AI and team science
  • AI and medical diagnosis and clinical decision support
  • The limits of AI when applied to complex systems
  • Complex systems and the replication crisis
  • AI in therapeutic decision making
  • AI in modelling cell biology
  • AI in modelling systems biology
  • AI-driven cell ontology
  • The challenges of implementing AI in healthcare

Persons who are interested in participating can register here. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.


Organizers

Workshop Co-organizers:

Bill Hogan, Jobst Landgrebe, Barry Smith

CTSOG Co-chairs:

Bill Hogan (University of Florida College of Medicine, Gainesville, FL), hoganwr@ufl.edu

Barry Smith (University at Buffalo, Buffalo, NY), phismith@buffalo.edu

Past meetings of CTSOG

Sponsors

  • University of Florida Clinical and Translational Science Institute Biomedical Informatics Program

Date

March 16 (Wednesday) - 18 (Friday), 2022

Venue

Embassy Suites by Hilton Orlando Lake Buena Vista South, Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click here. The room rate is available 3 days pre and post meeting in case you'd like to stay in Florida and enjoy the warm weather a little longer.

Registration

Registration is free, but we absolutely need you to register for planning purposes.

To register for the meeting, click here.

Schedule

Outline of Agenda (starting and stopping times for official agenda each day in bold)

Tuesday March 15th

Pre-Workshop Informal Meet & Greet: We will meet between 7pm and 10pm ...

Wednesday March 16th

9a-12p Working session on the ontology of social determinants of health

12p-1p Lunch (available to all, not just working session participants)

1p-1:15p Welcome and overview

1:15p-3:15p Opening Tutorial by Jobst Landgrebe, Cognotekt GmbH

  • Artificial Intelligence in Clinical and Translational Science

“Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this tutorial is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Potential topics to be explored are:

- Can NLP build useful medical ontologies?
- Machine learning and the role of ontology
- AI and team science
- AI and medical diagnosis and clinical decision support
- The limits of AI when applied to complex systems
- Complex systems and the replication crisis
- AI in therapeutic decision making
- AI in modelling cell biology
- AI in modelling systems biology
- AI-driven cell ontology
- The challenges of implementing AI in healthcare

The tutorial will focus on the question of what domains of medicine will benefit most from AI and how AI will impact the way we work in research and medical care.

Jobst Landgrebe is the founder and managing director of Cognotekt, an AI company based in Cologne, Germany, focusing on the creation of structured data from natural language text. Dr Landgrebe is an MD with a background in biomedical informatics. He is the co-author, with Barry Smith, of Why Machines Will Never Rule the World. Artificial Intelligence without Fear, to be published by Routledge in summer 2022.

3:15-3:30 Break

3:30-5:00 Presentations

  • Sivaram Arabandi, Clinical Decision Support, AI, and Ontology

5:30p Reception

Thursday March 17th

9a-5p Presentations with breaks and lunch provided

Times TBD

  • Jobst Landgrebe, The Replication Problem: Bad News for Medicine
The 'replication problem' is a phrase to describe the inability of scientific communities to independently confirm the results of scientific work. It has plagued medicine as a positive science since its beginnings (Virchov and Pasteur). But it has become worse over the last 30 years and has massive consequences for healthcare practice and policy. This talk explains the reasons for the replication problem in medicine and why it is here to stay.
  • Amelia Kahn, Definitions of Uncertainty
A preliminary survey of meanings assigned by government agencies to estimative words in the domain of probability and statistics.
  • Barry Smith, Capabilities
Capability has been proposed as a universal intermediate between Function and Disposition in BFO. A capability is defined as a disposition in whose realisation some organism or group of organisms has an interest. We outline the implications of this definition for medicine.

Friday March 18th

9a-12p Working session and discussion of next steps, closing

  • Frank Manion, The Common Rule Ontology
  • Mathias Brochhausen, Introduction to D-acts: The Document Act Ontology
  • Use cases - Facilitator: Mathias Brochhausen

12:00a: Close

Rationale/Goals

Travel Fund Application

Participants

  • Barry Smith, co-organizer, U at Buffalo
  • Jobst Landgrebe, co-organizer and special guest
  • William Hogan, co-organizer, UF
  • Mathias Brochhausen, UAMS
  • Sivaram Arabandi, Ontopro
  • Frank Manion, U of Michigan
  • Sarah Bost, UF
  • Alex Loiacono, UF
  • Naomi Braun, UF
  • Sonya White, UF
  • Donny Weinbrenner, UF
  • Matt Diller, UF


Announcement

The Clinical and Translational Science Ontology Group (CTSOG) invites you to join us March 16-18, 2022 in Orlando, Florida to discuss AI, Complex Systems in Biomedicine, and the role of ontology both in tempering the expectations of AI and advancing it to goals it can achieve. For example, we hear things all the time like “Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this workshop is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Example topics include:

  • Can NLP build useful medical ontologies?
  • Machine learning and the role of ontology
  • AI and team science
  • AI and medical diagnosis and clinical decision support
  • The limits of AI when applied to complex systems
  • Complex systems and the replication crisis
  • AI in therapeutic decision making
  • AI in modelling cell biology
  • AI in modelling systems biology
  • AI-driven cell ontology
  • The challenges of implementing AI in healthcare

Persons who are interested in participating can register here. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.


Organizers

Workshop Co-organizers:

Bill Hogan, Jobst Landgrebe, Barry Smith

CTSOG Co-chairs:

Bill Hogan (University of Florida College of Medicine, Gainesville, FL), hoganwr@ufl.edu

Barry Smith (University at Buffalo, Buffalo, NY), phismith@buffalo.edu

Past meetings of CTSOG

Sponsors

  • University of Florida Clinical and Translational Science Institute Biomedical Informatics Program

Date

March 16 (Wednesday) - 18 (Friday), 2022

Venue

Embassy Suites by Hilton Orlando Lake Buena Vista South, Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click here. The room rate is available 3 days pre and post meeting in case you'd like to stay in Florida and enjoy the warm weather a little longer.

Registration

Registration is free, but we absolutely need you to register for planning purposes.

To register for the meeting, click here.

Schedule

Outline of Agenda (starting and stopping times for official agenda each day in bold)

Tuesday March 15th

Pre-Workshop Informal Meet & Greet: We will meet between 7pm and 10pm ...

Wednesday March 16th

9a-12p Working session on the ontology of social determinants of health

12p-1p Lunch (available to all, not just working session participants)

1p-1:15p Welcome and overview

1:15p-3:15p Opening Tutorial by Jobst Landgrebe, Cognotekt GmbH

  • Abstract: “Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this tutorial is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Potential topics to be explored are:

- Can NLP build useful medical ontologies?
- Machine learning and the role of ontology
- AI and team science
- AI and medical diagnosis and clinical decision support
- The limits of AI when applied to complex systems
- Complex systems and the replication crisis
- AI in therapeutic decision making
- AI in modelling cell biology
- AI in modelling systems biology
- AI-driven cell ontology
- The challenges of implementing AI in healthcare

The tutorial will focus on the question of what domains of medicine will benefit most from AI and how AI will impact the way we work in research and medical care.

Jobst Landgrebe is the founder and managing director of Cognotekt, an AI company based in Cologne, Germany, focusing on the creation of structured data from natural language text. Dr Landgrebe is an MD with a background in biomedical informatics. He is the co-author, with Barry Smith, of Why Machines Will Never Rule the World. Artificial Intelligence without Fear, to be published by Routledge in summer 2022.

3:15-3:30 Break

3:30-5:00 Presentations

Sivaram Arabandi - Clinical Decision Support, AI, and Ontology

5:30p Reception

Thursday March 17th

9a-5p Presentations with breaks and lunch provided

Friday March 18th

9a-12p Working session and discussion of next steps, closing

10:45a: Introduction to CRO - Presenter: Frank Manion

11:00a: Introduction to D-acts - Presenter: Mathias Brochhausen

11:15a: Use cases - Facilitator: Mathias Brochhausen

12:00a: Close

Rationale/Goals

Travel Fund Application

Participants

  • Barry Smith, co-organizer, U at Buffalo
  • Jobst Landgrebe, co-organizer and special guest
  • William Hogan, co-organizer, UF
  • Mathias Brochhausen, UAMS
  • Sivaram Arabandi, Ontopro
  • Frank Manion, U of Michigan
  • Sarah Bost, UF
  • Alex Loiacono, UF
  • Naomi Braun, UF
  • Sonya White, UF
  • Donny Weinbrenner, UF
  • Matt Diller, UF

Workshop

Announcement

The Clinical and Translational Science Ontology Group (CTSOG) invites you to join us March 16-18, 2022 in Orlando, Florida to discuss AI, Complex Systems in Biomedicine, and the role of ontology both in tempering the expectations of AI and advancing it to goals it can achieve. For example, we hear things all the time like “Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this workshop is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Example topics include:

  • Can NLP build useful medical ontologies?
  • Machine learning and the role of ontology
  • AI and team science
  • AI and medical diagnosis and clinical decision support
  • The limits of AI when applied to complex systems
  • Complex systems and the replication crisis
  • AI in therapeutic decision making
  • AI in modelling cell biology
  • AI in modelling systems biology
  • AI-driven cell ontology
  • The challenges of implementing AI in healthcare

Persons who are interested in participating can register here. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.


Organizers

Workshop Co-organizers:

Bill Hogan, Jobst Landgrebe, Barry Smith

CTSOG Co-chairs:

Bill Hogan (University of Florida College of Medicine, Gainesville, FL), hoganwr@ufl.edu

Barry Smith (University at Buffalo, Buffalo, NY), phismith@buffalo.edu

Past meetings of CTSOG

Sponsors

  • University of Florida Clinical and Translational Science Institute Biomedical Informatics Program

Date

March 16 (Wednesday) - 18 (Friday), 2022

Venue

Embassy Suites by Hilton Orlando Lake Buena Vista South, Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click here. The room rate is available 3 days pre and post meeting in case you'd like to stay in Florida and enjoy the warm weather a little longer.

Registration

Registration is free, but we absolutely need you to register for planning purposes.

To register for the meeting, click here.

Schedule

Outline of Agenda (starting and stopping times for official agenda each day in bold)

Tuesday March 15th

Pre-Workshop Informal Meet & Greet: We will meet between 7pm and 10pm ...

Wednesday March 16th

9a-12p Working session on the ontology of social determinants of health

12p-1p Lunch (available to all, not just working session participants)

1p-1:15p Welcome and overview

1:15p-3:15p Opening Tutorial by Jobst Landgrebe, Cognotekt GmbH

  • Abstract: “Google’s deep-learning program for determining the 3D shapes of proteins stands to transform biology, say scientists.” An optimism of this sort as to the potential of AI is shared by many working in the field of clinical and translational science. The purpose of this tutorial is to explore the basis for this optimism, by looking at successes and failures of AI in different areas of biomedicine.

Potential topics to be explored are:

- Can NLP build useful medical ontologies?
- Machine learning and the role of ontology
- AI and team science
- AI and medical diagnosis and clinical decision support
- The limits of AI when applied to complex systems
- Complex systems and the replication crisis
- AI in therapeutic decision making
- AI in modelling cell biology
- AI in modelling systems biology
- AI-driven cell ontology
- The challenges of implementing AI in healthcare

The tutorial will focus on the question of what domains of medicine will benefit most from AI and how AI will impact the way we work in research and medical care.

Jobst Landgrebe is the founder and managing director of Cognotekt, an AI company based in Cologne, Germany, focusing on the creation of structured data from natural language text. Dr Landgrebe is an MD with a background in biomedical informatics. He is the co-author, with Barry Smith, of Why Machines Will Never Rule the World. Artificial Intelligence without Fear, to be published by Routledge in summer 2022.

3:15-3:30 Break

3:30-5:00 Presentations

Sivaram Arabandi - Clinical Decision Support, AI, and Ontology

5:30p Reception

Thursday March 17th

9a-5p Presentations with breaks and lunch provided

Friday March 18th

9a-12p Working session and discussion of next steps, closing

10:45a: Introduction to CRO - Presenter: Frank Manion

11:00a: Introduction to D-acts - Presenter: Mathias Brochhausen

11:15a: Use cases - Facilitator: Mathias Brochhausen

12:00a: Close

Rationale/Goals

Travel Fund Application

Participants

  • Barry Smith, co-organizer, U at Buffalo
  • Jobst Landgrebe, co-organizer and special guest
  • William Hogan, co-organizer, UF
  • Mathias Brochhausen, UAMS
  • Sivaram Arabandi, Ontopro
  • Frank Manion, U of Michigan
  • Sarah Bost, UF
  • Alex Loiacono, UF
  • Naomi Braun, UF
  • Sonya White, UF
  • Donny Weinbrenner, UF
  • Matt Diller, UF