Ontology for Precision Medicine: From Genomes to Public Health
Seventh Clinical and Translational Science Ontology Workshop
Announcement
The Clinical and Translational Science Ontology Group (CTSOG) invites you to join us on February 20-21, 2019 in Orlando, Florida
Orlando hotel details will follow soon.
We are happy to announce as keynote speaker:
- Janna Hastings (Babraham Institute, Cambridge, UK) speaking on Can ontologies help overcome the impasse in mental health research?
Organizers
William Hogan (University of Florida, Gainesville, FL), hoganwr@ufl.edu
Barry Smith (University at Buffalo, Buffalo, NY), phismith@buffalo.edu
Background
From genomes to public health, newer and larger datasets are increasingly available to inform precision approaches to the treatment and prevention of disease and disorders. Managing these datasets--especially their integration--for everything from managing the opioid epidemic to the learning health system to translational science--requires more and better ontologies. This workshop will briefly survey the state-of-the-art in ontology at the nexus of these trends, identify needs and opportunities for future work and collaborations, and develop one or more white papers charting the course for the future, including a set of recommendations for key stakeholders.
If you are interested in presenting cutting edge work in this area, please email a brief presentation proposal to Barry Smith (phismith@buffalo.edu) and Bill Hogan (hoganwr@ufl.edu). We are primarily interested in ontology, but also are interested to hear from experts in the CTSA network working in a diverse range of areas, from precision medicine, to the opioid epidemic, to precision public health.
For earlier meetings in the CTS Ontology Workshop series see here.
Persons interested in attending or in presenting at the meeting should write to [1].
Sponsors
National Center for Ontological Research
University of Florida Division of Biomedical Informatics
University of Florida Clinical and Translational Science Institute
Date
February 20 (Wednesday) - 21 (Thursday), 2019
Venue
Venue: Sheraton Lake Buena Vista Resort
12205 S Apopka Vineland Rd, Orlando, FL 32836
A block of rooms is available: use this link to reserve your hotel room.
Draft Schedule Day 1: February 20
Wednesday Morning
8:00am: Registration and Breakfast
8:45am: Session: An Agenda for Ontology in Pursuit of the Precision Health Agenda
- William Hogan - Introduction to the Meeting, and a Proposed Agenda for Ontology for Precision Health
- Michael Sinclair - Cross Products for Clinical Information Retrieval from the Human Disease Ontology
- Tentative (Ceusters - Disease Ontologies)
10:00-10:30am: Break
10:30-12:15pm: The Role of Ontology in Addressing the Opioid Crisis
- Peter Elkin: How ontology can be used to direct treatment for the Opioid Epidemic
- Mathias Brochhausen: Making Opioid Use Data Discoverable
- William Hogan: Drug Ontology for Opioid Research
12:15: Lunch
Wednesday Afternoon
1:00pm: Session: Applications of Ontology in Precision Medicine and Precision Public Health
- Jiang Bian: An ontology-driven data integration framework for integrative data analysis of cancer risk factors
Barriers to linking, integrating, and efficiently exploiting health information across different sites and domains slow down healthcare research and the development of precision health programs. The effort required to connect different sources is substantial due at least in part to the lack of clear definitions (i.e. data semantics) of variables, measures, and constructs, but it can be eased by semantic interoperability via an ontology-driven data infrastructure. In this talk, we will discuss our initial attempts to build a semantic data integration framework through ontology-driven data access framework and its use cases.
- Chris Stoeckert: Penn TURBO for patient profiles and precision medicine
3:00pm: Break
3:30pm: Cognitive Ontologies applied to the Representation of the Diagnostic Process
4:15pm: Keynote address
Janna Hastings: Can ontologies help overcome the impasse in mental health research?
Mental health conditions, including addiction, are among the most widespread causes of disability across the developed world, yet progress towards much-needed new treatments has stalled in recent years. Mental health research is hindered by a plethora of competing and often contradictory theoretical paradigms and frameworks, dividing available resources. There is no systematic overview of what is already known, and for each new result, it is difficult to predict whether and to what extent it may be applicable outside of its own (often narrowly defined) scope. The field urgently needs new approaches, which many organisations and funding agencies are calling for. I will argue that only after truly comprehensive theory and data synthesis is possible, will we be able to start to address the challenges in mental health research, and that ontologies are essential for this to happen. I will present recent work in the Mental Functioning Ontology to provide a truly integrative framework across sociocultural and biomedical perspectives on mental health. Finally, I will argue that even beyond the domain of mental health, a new focus on mental functioning in all medical conditions is a much needed ingredient for putting the "person" into "personalized medicine".
6:30pm: Dinner
Schedule Day 2: February 21
Thursday Morning
8:00am: Registration and Breakfast
8:20am: Mental functions and functioning
- David Limbaugh - The Cognitive Process Ontology and Its Application to Medical Diagnosis
- Barry Smith - What is a Mental Function?
9:30-9:45am: Break
9:45am: Panel Discussion: The Role of Ontology in Contributing to Solving the Opioid Crisis
12:15pm: Lunch
Thursday - Afternoon
1:00pm: Working session: Setting the agenda for ontology in precision health
4:00pm: Close
Rationale
Goals
Participants will include
Farzaneh Ashrafi (SNOMED, London, UK)
Jiang Bian (Gainesville, FL)
Matthias Brochhausen (Little Rock, Arkansas)
Michael Conlon (Gainesville, FL)
Lindsay Cowell (Dallas, TX)
Matthew Diller (Gainesville, FL)
Peter Elkin (Buffalo, NY)
Janna Hastings (Cambridge, UK)
Oliver He (Ann Arbor, MI)
Amanda Hicks (Gainesville, FL)
William Hogan (Gainesville, FL)
David Limbaugh (Buffalo, NY)
Matthew McConnell (Gainesville, FL)
Tona Mendoza (Gainesville, FL)
Jihad Obeid (Charleston, SC)
Michael Sinclair (Baltimore, MD)
Barry Smith (Buffalo, NY)
Suzanne Santamaria (SNOMED, London, UK)
Chris Stoeckert (U Penn, PA)
Sonya White (Gainesville, FL)
