NCOR Wiki - User contributions [en]

CTS Ontology Workshop 2023

2023-02-01T16:21:35Z

Bill Hogan: /* Draft Agenda: Friday Feb 24 */

Ontologies, AI and Electronic Health Records

More about the '''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group Clinical and Translational Science Ontology Group (CTSOG)]''' and previous meetings.

Feb 23 - 24, 2023 - Charleston, SC

[[File:Chs23sm.jpg|link=|right|alt=Charleston]]

__TOC__

== '''Background''' ==

'''The Clinical and Translational Science Ontology Group (CTSOG)''' invites you to join us February 23-24, 2023, in Charleston, SC to discuss the role of ontologies in improving electronic health records (EHR) systems by advancing semantic interoperability, translational research, and artificial intelligence (AI). As health data increases in volume and complexity, and artificial intelligence applications gain momentum, the need for careful planning and interoperability becomes more critical. The purpose of this workshop is to explore new paradigms in EHRs, by examining successes and failures of ontologies and AI in different areas of biomedicine and their role in equitable healthcare.

== '''Themes''' ==

* Improving the EHR with ontologies and with AI
* The functions of the EHR and other healthcare documents
* Social Determinants of Health
* Mental health
* ChatGPT

== '''Organizers''' ==

'''Workshop Co-organizers'''

Bill Hogan, Jihad Obeid, 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

== '''Sponsors''' ==

* '''Medical University of South Carolina, the Biomedical Informatics Center''' and:

[[File:Markiii-logo_160.png|link=https://www.markiiisys.com/|Mark III Systems]]           
[[File:Nvidia-logo_180.png|link=https://www.nvidia.com/en-us/|NVIDIA]]           
[[File:TriNetX-Logo-Horizontal-White_180.jpg|link=http://trinetx.com/|TriNetX]]

== '''Venue'''==

Biomedical Informatics Center

Medical University of South Carolina

'''Address:''' 22 Westedge St, Charleston, SC 29403

'''Directions:''' From Courtyard Marriott on Lockwood

* 10 minute walk, 0.4 miles, safe crosswalks along the route
* Hotel shuttle – runs periodically, need to ask hotel desk for timing details.

'''Paid parking:'''

* Parking deck at 10 WestEdge (building before 22 WestEdge, with Publix on bottom floor)
* App-based parking next to 22 WestEdge building (signage with instructions posted onsite)

== '''Hotel'''==

'''Courtyard by Marriott Charleston Waterfront'''

'''Address:''' 35 Lockwood Dr, Charleston, SC 29401

'''Phone:''' (843) 722-7229

[https://www.marriott.com/event-reservations/reservation-link.mi?id=1670450257241&key=GRP&app=resvlink Feb. 22-23 reservation link]

[https://www.marriott.com/event-reservations/reservation-link.mi?id=1670451475075&key=GRP&app=resvlink Feb. 24-25 reservation link] (use this link if you are extending your stay in Charleston through the weekend)

If you have any issues registering, please call the hotel directly at 843-722-7229 and mention you are visiting for the CTSA Ontology meeting.

=='''Registration'''==

[https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y Registration is free].

However, '''[https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y registration is required]''' for planning purposes. Please register for the workshop using [https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y this form].

== '''Draft Agenda: Thursday Feb 23'''==

08:30a: Breakfast and Networking

09:00: Introduction to the meeting

09:15

*'''Barry Smith and Jobst Landgrebe:''' Discussion on AI and Medicine, with a special focus on ChatGPT

'''Abstract: '''How are we to explain the peculiar tendency of ChatGPT to throw up what are called [https://buffalo.box.com/v/ChatGPT-Hallucinations ‘hallucinations’]? To answer this question we will draw on our book ''[https://buffalo.app.box.com/v/AI-Without-Fear Why Machines Will Never Rule the World]'', whose core thesis is that an artificial intelligence that could equal or exceed human intelligence—sometimes called "artificial general intelligence" (AGI)—is for mathematical reasons impossible. The argument for this thesis rests on the fact that (1.) human intelligence is a capability of a complex dynamic system—the human brain and central nervous system, and (2.) systems of this sort (like all organic systems) cannot be modelled mathematically in a way that would allow the models to operate inside a computer. We survey on this basis the potential of AI in the future of clinical and translational research.

--break--

11:00

*'''Discussion and brief presentations on:
:The Clinical and Translational Science ontology landscape in 2023
:Opportunities for AI in medicine
:Will AI make ontologies redundant?
:TBD

12:30-01:30p Networking and Working Lunch

01:30-3:00p Working sessions/Presentations

*'''Yonghui Wu:''' A large language model for electronic health records.

'''Abstract:''' Natural language processing (NLP) powered by pretrained language models is the key technology for medical AI systems utilizing clinical narratives. We develop from scratch a large clinical language model—GatorTron—using >90 billion words of text (including >82 billion words of de-identified clinical text). GatorTron models scale up the clinical language model from 110 million to 8.9 billion parameters and improve five clinical NLP tasks, which can be applied to medical AI systems to improve healthcare delivery.

--break--

3:15-5:00

*'''Richard Ohrbach and Barry Smith:''' Defining 'Injury'

'''Abstract:''' This session is intended as a contribution to the ontology component of a broader investigation of injury and pain. SNOMED-CT defines an injury as a 'disorder resulting from physical damage to the body'. The WHO defines an injury as a 'bodily lesion at the organic level, resulting from acute exposure to energy (mechanical, thermal, electrical, chemical or radiant), in amounts that exceed the threshold of physiological tolerance.' We will explore these and other definitions with a view to establishing a more coherent understanding of the ontology of injury and of related phenomena such as lesion, trauma, pain, and so forth. Further topics are listed [[Injury | here]]. For the ontology of pain, see in particular [https://philpapers.org/archive/SMITAO-12.pdf here]

=='''Draft Agenda: Friday Feb 24'''==

09:00-09:30a Breakfast and Networking

09:30-10:45a Working sessions/Presentations

*'''William Hogan:''' Semantic Representation of Occupations as Social Determinants of Health.

The ontological representation of occupation presents several challenges. For example, is it your occupation if you have not yet done it? Are you a nuclear engineer before you start your first job doing it? Also, if an occupation is a role (in the BFO sense), then how does it differ from a job role? If I have an occupation of professor, and have had four job roles as professors at different organizations, then that is one occupation numerically but four job roles. How to handle non-employment situations such as "retired" and "homemaker"? What if you concurrently hold two jobs in different "occupations"? I will discuss these issues in the context of recent discussions at the OMRSE monthly meeting and present some options for ontological representation of occupation and related entities.

--break--

11:00-12:30p Working sessions/Presentations

*'''Justin Reese:''' Unsupervised machine learning to define subtypes of long COVID using the Human Phenotype Ontology. [[Authors | Co-authors]]

'''Abstract:''' Stratification of patients with post-acute sequelae of SARS-CoV-2 infection (PASC, or long COVID) would allow precision clinical management strategies. However, long COVID is incompletely understood and characterized by a wide range of manifestations that are difficult to analyze computationally. Additionally, the generalisability of machine learning classification of COVID-19 clinical outcomes has rarely been tested.

We present a method for defining subtypes of long COVID by computationally modeling PASC phenotype data and applying unsupervised machine learning. We extracted Long COVID phenotype data expressed as HPO (Human Phenotype Ontology) terms from electronic healthcare records (EHRs), and then used semantic similarity of phenotype data to calculate a matrix of pairwise patient similarity. This matrix was then used to clustered patients using unsupervised machine learning (k means clustering).

We identified six clusters of PASC patients, each with distinct profiles of phenotypic abnormalities, including clusters with distinct pulmonary, neuropsychiatric, and cardiovascular abnormalities, and a cluster associated with broad, severe manifestations and increased mortality. There was significant association of cluster membership with a range of pre-existing conditions and measures of severity during acute COVID-19. We assigned new patients from other healthcare centers to clusters by maximum semantic similarity to the original patients, and showed that the clusters were generalisable across different hospital systems. The increased mortality rate originally identified in one cluster was consistently observed in patients assigned to that cluster in other hospital systems.

Semantic phenotypic clustering provides a foundation for assigning patients to stratified subgroups for natural history or therapy studies on PASC.

12:30-01:30p Networking and Working Lunch

1:00-03:15p Working sessions/Presentations

--break--

03:30-'''5:00p''' Working sessions/Presentations of industry partners

== '''Participants''' ==

* William Hogan, co-organizer, University of Florida
* Jihad Obeid, co-organizer, Medical University of South Carolina
* Barry Smith, co-organizer, University at Buffalo

* Hamilton Baker, Medical University of South Carolina
* Jobst Landgrebe, Cognotekt, Cologne
* Tom Hutchinson, University of Pennsylvania, Institute for BioInformatics
* Anna Maria Masci, National Institute of Environmental Health Sciences (NIEHS)
* Richard Ohrbach, University at Buffalo
* Justin Reese, Lawrence Berkeley National Laboratory
* Richard Scheuermann, J. Craig Venter Institute
* Matt Skowronek, TriNetX
* Umit Topaloglu, Center for Biomedical Informatics and Information Technology (CBIIT) National Cancer Institute
* Yonghui Wu, University of Florida

CTS Ontology Workshop 2023

2023-02-01T16:21:20Z

Bill Hogan: /* Draft Agenda: Friday Feb 24 */

Ontologies, AI and Electronic Health Records

More about the '''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group Clinical and Translational Science Ontology Group (CTSOG)]''' and previous meetings.

Feb 23 - 24, 2023 - Charleston, SC

[[File:Chs23sm.jpg|link=|right|alt=Charleston]]

__TOC__

== '''Background''' ==

'''The Clinical and Translational Science Ontology Group (CTSOG)''' invites you to join us February 23-24, 2023, in Charleston, SC to discuss the role of ontologies in improving electronic health records (EHR) systems by advancing semantic interoperability, translational research, and artificial intelligence (AI). As health data increases in volume and complexity, and artificial intelligence applications gain momentum, the need for careful planning and interoperability becomes more critical. The purpose of this workshop is to explore new paradigms in EHRs, by examining successes and failures of ontologies and AI in different areas of biomedicine and their role in equitable healthcare.

== '''Themes''' ==

* Improving the EHR with ontologies and with AI
* The functions of the EHR and other healthcare documents
* Social Determinants of Health
* Mental health
* ChatGPT

== '''Organizers''' ==

'''Workshop Co-organizers'''

Bill Hogan, Jihad Obeid, 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

== '''Sponsors''' ==

* '''Medical University of South Carolina, the Biomedical Informatics Center''' and:

[[File:Markiii-logo_160.png|link=https://www.markiiisys.com/|Mark III Systems]]           
[[File:Nvidia-logo_180.png|link=https://www.nvidia.com/en-us/|NVIDIA]]           
[[File:TriNetX-Logo-Horizontal-White_180.jpg|link=http://trinetx.com/|TriNetX]]

== '''Venue'''==

Biomedical Informatics Center

Medical University of South Carolina

'''Address:''' 22 Westedge St, Charleston, SC 29403

'''Directions:''' From Courtyard Marriott on Lockwood

* 10 minute walk, 0.4 miles, safe crosswalks along the route
* Hotel shuttle – runs periodically, need to ask hotel desk for timing details.

'''Paid parking:'''

* Parking deck at 10 WestEdge (building before 22 WestEdge, with Publix on bottom floor)
* App-based parking next to 22 WestEdge building (signage with instructions posted onsite)

== '''Hotel'''==

'''Courtyard by Marriott Charleston Waterfront'''

'''Address:''' 35 Lockwood Dr, Charleston, SC 29401

'''Phone:''' (843) 722-7229

[https://www.marriott.com/event-reservations/reservation-link.mi?id=1670450257241&key=GRP&app=resvlink Feb. 22-23 reservation link]

[https://www.marriott.com/event-reservations/reservation-link.mi?id=1670451475075&key=GRP&app=resvlink Feb. 24-25 reservation link] (use this link if you are extending your stay in Charleston through the weekend)

If you have any issues registering, please call the hotel directly at 843-722-7229 and mention you are visiting for the CTSA Ontology meeting.

=='''Registration'''==

[https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y Registration is free].

However, '''[https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y registration is required]''' for planning purposes. Please register for the workshop using [https://redcap.musc.edu/surveys/?s=W7FNH78FFHCRNN9Y this form].

== '''Draft Agenda: Thursday Feb 23'''==

08:30a: Breakfast and Networking

09:00: Introduction to the meeting

09:15

*'''Barry Smith and Jobst Landgrebe:''' Discussion on AI and Medicine, with a special focus on ChatGPT

'''Abstract: '''How are we to explain the peculiar tendency of ChatGPT to throw up what are called [https://buffalo.box.com/v/ChatGPT-Hallucinations ‘hallucinations’]? To answer this question we will draw on our book ''[https://buffalo.app.box.com/v/AI-Without-Fear Why Machines Will Never Rule the World]'', whose core thesis is that an artificial intelligence that could equal or exceed human intelligence—sometimes called "artificial general intelligence" (AGI)—is for mathematical reasons impossible. The argument for this thesis rests on the fact that (1.) human intelligence is a capability of a complex dynamic system—the human brain and central nervous system, and (2.) systems of this sort (like all organic systems) cannot be modelled mathematically in a way that would allow the models to operate inside a computer. We survey on this basis the potential of AI in the future of clinical and translational research.

--break--

11:00

*'''Discussion and brief presentations on:
:The Clinical and Translational Science ontology landscape in 2023
:Opportunities for AI in medicine
:Will AI make ontologies redundant?
:TBD

12:30-01:30p Networking and Working Lunch

01:30-3:00p Working sessions/Presentations

*'''Yonghui Wu:''' A large language model for electronic health records.

'''Abstract:''' Natural language processing (NLP) powered by pretrained language models is the key technology for medical AI systems utilizing clinical narratives. We develop from scratch a large clinical language model—GatorTron—using >90 billion words of text (including >82 billion words of de-identified clinical text). GatorTron models scale up the clinical language model from 110 million to 8.9 billion parameters and improve five clinical NLP tasks, which can be applied to medical AI systems to improve healthcare delivery.

--break--

3:15-5:00

*'''Richard Ohrbach and Barry Smith:''' Defining 'Injury'

'''Abstract:''' This session is intended as a contribution to the ontology component of a broader investigation of injury and pain. SNOMED-CT defines an injury as a 'disorder resulting from physical damage to the body'. The WHO defines an injury as a 'bodily lesion at the organic level, resulting from acute exposure to energy (mechanical, thermal, electrical, chemical or radiant), in amounts that exceed the threshold of physiological tolerance.' We will explore these and other definitions with a view to establishing a more coherent understanding of the ontology of injury and of related phenomena such as lesion, trauma, pain, and so forth. Further topics are listed [[Injury | here]]. For the ontology of pain, see in particular [https://philpapers.org/archive/SMITAO-12.pdf here]

=='''Draft Agenda: Friday Feb 24'''==

09:00-09:30a Breakfast and Networking

09:30-10:45a Working sessions/Presentations

*'''William Hogan:''' Semantic Representation of Occupations as Social Determinants of Health.

The ontological representation of occupation presents several challenges. For example, is it your occupation if you have no yet done it? Are you a nuclear engineer before you start your first job doing it? Also, if an occupation is a role (in the BFO sense), then how does it differ from a job role? If I have an occupation of professor, and have had four job roles as professors at different organizations, then that is one occupation numerically but four job roles. How to handle non-employment situations such as "retired" and "homemaker"? What if you concurrently hold two jobs in different "occupations"? I will discuss these issues in the context of recent discussions at the OMRSE monthly meeting and present some options for ontological representation of occupation and related entities.

--break--

11:00-12:30p Working sessions/Presentations

*'''Justin Reese:''' Unsupervised machine learning to define subtypes of long COVID using the Human Phenotype Ontology. [[Authors | Co-authors]]

'''Abstract:''' Stratification of patients with post-acute sequelae of SARS-CoV-2 infection (PASC, or long COVID) would allow precision clinical management strategies. However, long COVID is incompletely understood and characterized by a wide range of manifestations that are difficult to analyze computationally. Additionally, the generalisability of machine learning classification of COVID-19 clinical outcomes has rarely been tested.

We present a method for defining subtypes of long COVID by computationally modeling PASC phenotype data and applying unsupervised machine learning. We extracted Long COVID phenotype data expressed as HPO (Human Phenotype Ontology) terms from electronic healthcare records (EHRs), and then used semantic similarity of phenotype data to calculate a matrix of pairwise patient similarity. This matrix was then used to clustered patients using unsupervised machine learning (k means clustering).

We identified six clusters of PASC patients, each with distinct profiles of phenotypic abnormalities, including clusters with distinct pulmonary, neuropsychiatric, and cardiovascular abnormalities, and a cluster associated with broad, severe manifestations and increased mortality. There was significant association of cluster membership with a range of pre-existing conditions and measures of severity during acute COVID-19. We assigned new patients from other healthcare centers to clusters by maximum semantic similarity to the original patients, and showed that the clusters were generalisable across different hospital systems. The increased mortality rate originally identified in one cluster was consistently observed in patients assigned to that cluster in other hospital systems.

Semantic phenotypic clustering provides a foundation for assigning patients to stratified subgroups for natural history or therapy studies on PASC.

12:30-01:30p Networking and Working Lunch

1:00-03:15p Working sessions/Presentations

--break--

03:30-'''5:00p''' Working sessions/Presentations of industry partners

== '''Participants''' ==

* William Hogan, co-organizer, University of Florida
* Jihad Obeid, co-organizer, Medical University of South Carolina
* Barry Smith, co-organizer, University at Buffalo

* Hamilton Baker, Medical University of South Carolina
* Jobst Landgrebe, Cognotekt, Cologne
* Tom Hutchinson, University of Pennsylvania, Institute for BioInformatics
* Anna Maria Masci, National Institute of Environmental Health Sciences (NIEHS)
* Richard Ohrbach, University at Buffalo
* Justin Reese, Lawrence Berkeley National Laboratory
* Richard Scheuermann, J. Craig Venter Institute
* Matt Skowronek, TriNetX
* Umit Topaloglu, Center for Biomedical Informatics and Information Technology (CBIIT) National Cancer Institute
* Yonghui Wu, University of Florida

Eighth Clinical and Translational Science Ontology Workshop

2022-03-17T21:27:14Z

Bill Hogan: /* Wednesday March 16th */ minor fixes

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:57:53Z

Bill Hogan: /* Wednesday March 16th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:40:59Z

Bill Hogan: /* Wednesday March 16th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:40:14Z

Bill Hogan: /* Wednesday March 16th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:28:20Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:24:52Z

Bill Hogan: /* Participants */ up to the minute participant list

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:14:24Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:13:24Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:13:00Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-03-10T18:12:18Z

Bill Hogan: /* Wednesday March 16th */ updated working session description

Eighth Clinical and Translational Science Ontology Workshop

2022-02-18T19:19:30Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-18T19:16:21Z

Bill Hogan: /* Thursday March 17th */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-15T20:08:48Z

Bill Hogan: /* Participants */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-13T14:38:52Z

Bill Hogan: /* Participants */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-13T14:37:14Z

Bill Hogan: /* Friday March 18th */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:55:04Z

Bill Hogan: /* Schedule */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:54:56Z

Bill Hogan: /* Registration */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:54:50Z

Bill Hogan: /* Venue */

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:54:36Z

Bill Hogan: /* Thursday March 17th */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:54:17Z

Bill Hogan: /* Friday March 18th */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:54:08Z

Bill Hogan: /* Rationale/Goals */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:58Z

Bill Hogan: /* Travel Fund Application */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:50Z

Bill Hogan: /* Participants */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:37Z

Bill Hogan: /* Date */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:23Z

Bill Hogan: /* Sponsors */ duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:13Z

Bill Hogan: /* Organizers */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:53:01Z

Bill Hogan: /* Announcement */ duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:52:47Z

Bill Hogan: /* Participants */ duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:52:29Z

Bill Hogan: /* Travel Fund Application */ duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:52:16Z

Bill Hogan: /* Rationale/Goals */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:52:02Z

Bill Hogan: /* Schedule */ Duplicate

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:51:32Z

Bill Hogan: /* Registration */ Duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:51:01Z

Bill Hogan: /* Venue */ duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

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

To register for the meeting, click [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:50:42Z

Bill Hogan: /* Date */ duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:50:30Z

Bill Hogan: /* Sponsors */ Duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:49:29Z

Bill Hogan: /* Organizers */ duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:49:10Z

Bill Hogan: /* Announcement */ duplicate

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Eighth Clinical and Translational Science Ontology Workshop

2022-02-08T16:41:02Z

Bill Hogan: /* Thursday March 17th */

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

9a Bill Hogan "Ontology for Social Determinants of Health with a Focus on Education"

===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

== '''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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

Clinical and Translational Science Ontology Group

2022-02-08T16:39:30Z

Bill Hogan: /* Annual Workshops */

== Mission ==
The Clinical and Translational Science Ontology group exists to promote and advance the development and usage of standard ontologies as a catalyst for translational science.

== Annual Workshops ==

[http://www.bioontology.org/wiki/index.php/Clinical_and_Translational_Science_Ontology_Workshop First Clinical and Translational Science Ontology Workshop], National Center for Biomedical Ontology, Baltimore, MD, April 25-26, 2012

[http://ncorwiki.buffalo.edu/index.php/CTSA_Ontology_Workshop Second Clinical and Translational Science Ontology Workshop], Orlando, FL, February 11-12, 2013, sponsored by the Translational Network of the University of Arkansas for Medical Sciences (with William Hogan and Melissa Haendel)

[http://ncorwiki.buffalo.edu/index.php/Ontology_and_Imaging_Informatics Ontology and Imaging Informatics; Third Clinical and Translational Science Ontology Workshop], University at Buffalo, NY, June 23-25, 2014

[[CTS Ontology Workshop 2015]], Ontology in Practice, Charleston, South Carolina, September 23-25, 2015

[http://ncorwiki.buffalo.edu/index.php/Clinical_Terminology_Shock_and_Awe CTS Ontology Workshop 2016], Clinical Terminology Shock and Awe, Buffalo, NY, September 7-8, 2016

CTS Ontology Workshop 2017, [http://ncorwiki.buffalo.edu/index.php/Microbiology_for_the_CTSA:_Ontological_Approaches Microbiology for the CTSA: Ontological Approaches], Ann Arbor, October 25-26, 2017

CTS Ontology Spring Workshop 2018, [http://ncorwiki.buffalo.edu/index.php/Ontology_of_Informed_Consent:_An_Approach_to_Specimen_and_Data_Sharing Ontology of Informed Consent: An Approach to Specimen and Data Sharing], Little Rock, Arkansas, February 26-27, 2018

CTS Ontology Spring Workshop 2019, [http://ncorwiki.buffalo.edu/index.php/Ontology_for_Precision_Medicine:_From_Genomes_to_Public_Health Ontology for Precision Medicine: From Genomes to Public Health], Gainesville, Florida, February 20-21, 2019

'''FORTHCOMING MEETING'''

[http://ncorwiki.buffalo.edu/index.php/Eighth_Clinical_and_Translational_Science_Ontology_Workshop Eighth Clinical and Translational Science Ontology Workshop: AI and Complex Systems in Biomedicine], Orlando, Florida, March 16-18, 2022

== Other Meetings ==

[[The Role of Ontology in Big Cancer Data]], National Cancer Institute, Bethesda, Maryland, May 12-13, 2015

[http://ncorwiki.buffalo.edu/index.php/Workshop_on_BFO_and_the_Ontology_of_Social_Entities_2016 Workshop on BFO and the Ontology of Social Entities], Gainesville, FL, February 17-19, 2016

== News ==
June 17, 2014: Ontology for Biomedical Investigations a key component of [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0099979 standards for data about pathogen/vector genome sequences].

== Recommendations on Community-based Standards ==

The CTSOG submitted a response [http://www.communitybasedstandards.org/workshop-report/#comments] to a request for comments on a workshop report [http://www.communitybasedstandards.org/workshop-report/] on community-based standards.

== Defining Ontology ==
A past initiative of the CTSOG was to define the subject matter of the CTSOG, that is, to address the question: what is it that we as a group are promoting? A working group generated a [https://drive.google.com/file/d/0B3lWz1vGIs2hb2c3czMyOV81UEk white paper] that answers the question.

== History ==
Following discussion at the [http://www.bioontology.org/wiki/index.php/Clinical_and_Translational_Science_Ontology_Workshop Clinical and Translational Science Ontology Workshop] held in Buffalo, NY in April, 2012, a group of individuals applied to create the CTSOG as an affinity group in the Informatics Key Function Committee (IKFC) of the CTSA Consortium (see [[Announcing Clinical and Translational Science Ontology Affinity Group]]). This group sponsored a second face-to-face meeting, the [[CTSA Ontology Workshop]], in Orlando in February, 2013. In January, 2014 however, the National Center for Advancing Translational Sciences restructured the governance of the Consortium. Although the IKFC no longer exists, the Ontology Group continued on without Consortium support, changing its name to leave out the word 'affinity'.

See the original [http://ncor.buffalo.edu/CTSA/elevator-pitch elevator pitch] and [http://ncor.buffalo.edu/CTSA/operations-proposal operations proposal] for the formation of the group.

Clinical and Translational Science Ontology Group

2022-02-08T16:38:50Z

Bill Hogan: /* Annual Workshops */ For some reason the 7th workshop was not linked. So for completeness sake and ease of finding them all from one place, etc.

== Mission ==
The Clinical and Translational Science Ontology group exists to promote and advance the development and usage of standard ontologies as a catalyst for translational science.

== Annual Workshops ==

[http://www.bioontology.org/wiki/index.php/Clinical_and_Translational_Science_Ontology_Workshop First Clinical and Translational Science Ontology Workshop], National Center for Biomedical Ontology, Baltimore, MD, April 25-26, 2012

[http://ncorwiki.buffalo.edu/index.php/CTSA_Ontology_Workshop Second Clinical and Translational Science Ontology Workshop], Orlando, FL, February 11-12, 2013, sponsored by the Translational Network of the University of Arkansas for Medical Sciences (with William Hogan and Melissa Haendel)

[http://ncorwiki.buffalo.edu/index.php/Ontology_and_Imaging_Informatics Ontology and Imaging Informatics; Third Clinical and Translational Science Ontology Workshop], University at Buffalo, NY, June 23-25, 2014

[[CTS Ontology Workshop 2015]], Ontology in Practice, Charleston, South Carolina, September 23-25, 2015

[http://ncorwiki.buffalo.edu/index.php/Clinical_Terminology_Shock_and_Awe CTS Ontology Workshop 2016], Clinical Terminology Shock and Awe, Buffalo, NY, September 7-8, 2016

CTS Ontology Workshop 2017, [http://ncorwiki.buffalo.edu/index.php/Microbiology_for_the_CTSA:_Ontological_Approaches Microbiology for the CTSA: Ontological Approaches], Ann Arbor, October 25-26, 2017

CTS Ontology Spring Workshop 2018, [http://ncorwiki.buffalo.edu/index.php/Ontology_of_Informed_Consent:_An_Approach_to_Specimen_and_Data_Sharing Ontology of Informed Consent: An Approach to Specimen and Data Sharing], Little Rock, Arkansas, February 26-27, 2018

CTS Ontology Spring Workshop 2019, [http://ncorwiki.buffalo.edu/index.php/Ontology_for_Precision_Medicine:_From_Genomes_to_Public_Health], Gainesville, Florida, February 20-21, 2019

'''FORTHCOMING MEETING'''

[http://ncorwiki.buffalo.edu/index.php/Eighth_Clinical_and_Translational_Science_Ontology_Workshop Eighth Clinical and Translational Science Ontology Workshop: AI and Complex Systems in Biomedicine], Orlando, Florida, March 16-18, 2022

== Other Meetings ==

[[The Role of Ontology in Big Cancer Data]], National Cancer Institute, Bethesda, Maryland, May 12-13, 2015

[http://ncorwiki.buffalo.edu/index.php/Workshop_on_BFO_and_the_Ontology_of_Social_Entities_2016 Workshop on BFO and the Ontology of Social Entities], Gainesville, FL, February 17-19, 2016

== News ==
June 17, 2014: Ontology for Biomedical Investigations a key component of [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0099979 standards for data about pathogen/vector genome sequences].

== Recommendations on Community-based Standards ==

The CTSOG submitted a response [http://www.communitybasedstandards.org/workshop-report/#comments] to a request for comments on a workshop report [http://www.communitybasedstandards.org/workshop-report/] on community-based standards.

== Defining Ontology ==
A past initiative of the CTSOG was to define the subject matter of the CTSOG, that is, to address the question: what is it that we as a group are promoting? A working group generated a [https://drive.google.com/file/d/0B3lWz1vGIs2hb2c3czMyOV81UEk white paper] that answers the question.

== History ==
Following discussion at the [http://www.bioontology.org/wiki/index.php/Clinical_and_Translational_Science_Ontology_Workshop Clinical and Translational Science Ontology Workshop] held in Buffalo, NY in April, 2012, a group of individuals applied to create the CTSOG as an affinity group in the Informatics Key Function Committee (IKFC) of the CTSA Consortium (see [[Announcing Clinical and Translational Science Ontology Affinity Group]]). This group sponsored a second face-to-face meeting, the [[CTSA Ontology Workshop]], in Orlando in February, 2013. In January, 2014 however, the National Center for Advancing Translational Sciences restructured the governance of the Consortium. Although the IKFC no longer exists, the Ontology Group continued on without Consortium support, changing its name to leave out the word 'affinity'.

See the original [http://ncor.buffalo.edu/CTSA/elevator-pitch elevator pitch] and [http://ncor.buffalo.edu/CTSA/operations-proposal operations proposal] for the formation of the group.

AI and Complex Systems in Biomedicine

2022-02-01T17:38:57Z

Bill Hogan: /* Sponsors */ added a sponsor

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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

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

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

AI and Complex Systems in Biomedicine

2022-02-01T15:35:36Z

Bill Hogan: /* Announcement */

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 [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

AI and Complex Systems in Biomedicine

2022-02-01T15:32:12Z

Bill Hogan: /* Participants */

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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

AI and Complex Systems in Biomedicine

2022-02-01T15:30:42Z

Bill Hogan: /* Participants */

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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
*Frank Manion
*Sarah Bost, UF
*Alex Loiacono, UF
*Naomi Braun, UF
*Sonya White, UF
*Donny Weinbrenner, UF
*Matt Diller, UF

AI and Complex Systems in Biomedicine

2022-02-01T15:28:06Z

Bill Hogan: /* Participants */ Started the list of participants with folks who are quite certain.

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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
Frank Manion
Sarah Bost, UF
Alex Loiacono, UF
Naomi Braun, UF
Sonya White, UF
Donny Weinbrenner, UF
Matt Diller, UF

AI and Complex Systems in Biomedicine

2022-02-01T15:24:49Z

Bill Hogan: /* Registration */ Added registration link to this section as well.

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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 [https://form.jotform.com/220035160081136 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''' ==

AI and Complex Systems in Biomedicine

2022-02-01T15:23:48Z

Bill Hogan: /* Venue */ Added link to room block reservations.

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport).

To reserve a room in our block, click [https://book.passkey.com/e/50259470 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'''==
A link to register will be forthcoming. We currently anticipate free to register, but that is subject to change.

== '''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''' ==

AI and Complex Systems in Biomedicine

2022-02-01T15:21:38Z

Bill Hogan: /* Announcement */ I corrected the registration link, which was wrong.

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

Example use cases include .

'''Persons who are interested in participating can register [https://form.jotform.com/220035160081136 here]. If you have any questions, please contact William Hogan at hoganwr@ufl.edu.'''

----

== '''Organizers''' ==
'''Workshop Co-organizers:'''

Bill Hogan, [https://wikitia.com/wiki/Jobst_Landgrebe 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

'''[http://ncorwiki.buffalo.edu/index.php/Clinical_and_Translational_Science_Ontology_Group#Annual_Workshops Past meetings of CTSOG]'''

== '''Sponsors''' ==

*

== '''Date''' ==
March 16 (Wednesday) - 18 (Friday), 2022

== '''Venue'''==

[https://embassysuites3.hilton.com/en/hotels/florida/embassy-suites-by-hilton-orlando-lake-buena-vista-south-MCOLKES/offers/index.htm Embassy Suites by Hilton Orlando Lake Buena Vista South], Kissimmee, FL (20 minutes from Orlando airport). A block of rooms will be available as well, and we will announce the block code in coming weeks.

=='''Registration'''==
A link to register will be forthcoming. We currently anticipate free to register, but that is subject to change.

== '''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''' ==