Schedule

July 29 - August 2

All Conference Sessions are being held in the Jacobs School of Medicine and Biomedical Sciences, 955 Main Street, Buffalo, NY, 14203. Please use the main entrance located at the corner of High St. & Main St. Your conference ID badge will allow access to the building and is required by security to be worn at all times during the meeting.

Morning and Afternoon coffee breaks will occur Tuesday-Friday outside the Active Learning Center, even where not noted on schedule.

PDF Version of Schedule

July 29

OBO Core Workshop

Room 1110, Jacobs School of Medicine and Biomedical Sciences

8:15 – 9:00

Continental Breakfast

9:00 – 12:00

OBO core workshop (invitation only)

12:00 – 1:00

Lunch

1:00 – 4:00

OBO core workshop (invitation only)

4:00 – 5:00

Session on integration of Common Core Ontologies with BFO and OBO-Core

July 30

Tutorials & Workshops

8:00 – 9:00

ICBO 2019 Registration, entry lobby, Jacobs School of Medicine and Biomedical Sciences

Continental Breakfast, outside Active Learning Center, Jacobs School of Medicine and Biomedical Sciences

9:00 – 12:00

    1. First International Workshop on Biomedical Ontologies & Natural Language Processing
      • Active Learning Center
    2. An Introduction to Referent Tracking
      • Room 2220

12:00 – 1:00

Lunch

Outside Active Learning Center

1:00 – 4:00

    1. Tutorial: Machine learning with ontologies
      • Active Learning Center
    2. An Introduction to Referent Tracking
      • Room 2220

Presentations

Active Learning Center

Session Chair 4 – 5: William Duncan

4:00 – 4:20

Foundation for a realist ontology of cognitive processes

David Kasmier, David Limbaugh and Barry Smith

4:20 – 4:40

Mental Capabilities

Eric Merrell, David Limbaugh, Alex Anderson and Barry Smith

4:40 – 5:00

Warranted Diagnosis

David Limbaugh, David Kasmier, Werner Ceusters and Barry Smith

5:00

End of activities for the day

July 31

Tutorials & Workshops

8:00 – 9:00

ICBO 2019 Registration, entry lobby, Jacobs School of Medicine and Biomedical Sciences

Continental Breakfast, outside Active Learning Center

9:00 – 12:00

    1. 8th Vaccine and Drug Ontology Studies (VDOS) workshop
      • Room 2220
    2. A how-to guide to create, manage, and release an OBO ontology
      • Active Learning Center

12:00 – 1:00

Lunch

Outside Active Learning Center

1:00 – 4:00

    1. The 3rd international Cells in Experimental Life Science Workshop (CELLS-2019)
      • Room 2220
    2. Tutorial: Basic Formal Ontology and Its Applications in Biomedicine
      • Active Learning Center

Presentations

Active Learning Center

Session Chair 4 – 5: James Overton

4:00 – 4:20

Visual representation for knowledge representation: Graphic libraries to support anatomy terminologies and ontologies

Melissa Clarkson and Steven Roggenkamp

4:20 – 4:40

Wordified Ontologies: Evaluating a Novel Paradigm for Ontology Editing

Aisha Blfgeh and Phillip Lord

4:40 – 5:00

Representing Causation: A Dispositional Perspective

Fumiaki Toyoshima

5:00 – 8:00

Networking Reception

Poster presentations & Software demonstrations

August 1

All conference sessions will be in the Active Learning Center

8:00 – 8:30

ICBO 2019 Registration, entry lobby, Jacobs School of Medicine and Biomedical Sciences

Continental Breakfast, outside Active Learning Center

8:30 – 9:00

Opening remarks

9:00 – 10:00

Keynote Presentation, chair William Duncan

International Standard Ontology

Barry Smith, Julian Park Chair, Department of Philosophy, University at Buffalo

10:00 – 10:30

Coffee Break

Session Chair 10:30 – 12: William Hogan

10:30 – 10:50

Comparing the representation of medicinal products in RxNorm and SNOMED CT – Consequences on interoperability

Jean Noël Nikiema and Olivier Bodenreider

10:50 – 11:20

A classification of instructions in drug prescriptions and pharmacist documents

Adrien Barton, Paul Fabry and Jean-Francois Ethier

11:20 – 11:40

Chinese Ontology Construction and Application for Drug Adverse Reaction

Xin Lin, Jinjing Guo and Huiling Ren

11:40 – 12:00

TXPO: A toxic process ontology for better understanding of drug-induced liver injury

Yuki Yamagata, Yoshinobu Igarashi, Noriyuki Nakatsu and Hiroshi Yamada

12:00 – 1:00

Lunch

Outside Active Learning Center

Session Chair 1 – 2:10: Oliver He

1:00 – 1:30

Ontology of Physics for Biology — a companion ontology to Basic Formal Ontology

Daniel Cook, John Gennari and Maxwell Neal

1:30 – 1:50

A Realism-based Approach to Representing Symbiotic Interactions

Matthew Diller, Evan Johnson, Amanda Hicks and William Hogan

1:50 – 2:10

ICEO: a biological ontology for representing and analyzing the bacterial integrative and conjugative element

Meng Liu, Hong-Yu Ou and Yongqun He

2:10 – 2:30

Coffee Break

Session Chair 2:30 – 4: Lynn Schriml

2:30 – 3:00

OPMI: the Ontology of Precision Medicine and Investigation and its support for clinical data and metadata representation and analysis

Yongqun He, Edison Ong, Jennifer Schaub, Frederick Dowd, John F. O’toole, Anastasios Siapos, Christian Reich, Sarah Seager, Ling Wan, Hong Yu, Jie Zheng, Christian Stoeckert, Xiaolin Yang, Sheng Yang, Becky Steck, Christopher Park, Laura Barisoni, Matthias Kretzler, Jonathan Himmelfarb, Ravi Iyengar and Sean Mooney

3:00 – 3:30

The Hypertension Ontology: Coordinating clinical data with context-sensitive hypertension criteria

Amanda Hicks, Mark Miller, Danielle Mowery and Christian Stoeckert

3:30 – 4:00

ICDO: Ontological representation of the International Classification of Diseases (ICD) and its application in English and Chinese healthy data standardization

Ling Wan, Edison Ong and Yongqun He

4:00 – 5:30

Poster presentations & Software demonstrations

5:30 – 6:00

Leave for dinner by hired bus or private transport

6:00 – 9:00

Dinner at Marcy Casino, Delaware Park (included in Conference Fee)

Directions

August 2

All conference sessions will be in the Active Learning Center

8:00 – 9:00

Continental Breakfast, outside Active Learning Center

9:00 – 10:00

Keynote Presentation, chair Alexander Diehl

Putting principles into practice: OBO ontologies and applications in immunology

Bjoern Peters, Professor, La Jolla Institute for Immunology

10:00 – 10:20

Break

Session Chair 10:20 – 12:10: Jonathan Bona

10:20 – 10:50

Ontology as Product-Service System: A Study of GO, BFO and DOLCE

Barry Smith

10:50 – 11:20

Building a Shared Ontology Use Patterns Repository

Jonathan Bona, Joseph Utecht, Sarah Bost, Corey Hayes and Mathias Brochhausen

11:20 – 11:50

A Collaborative, Realism-Based, Electronic Healthcare Graph: Public Data, Common Data Models, and Practical Instantiation

Mark Miller and Christian Stoeckert

11:50 – 12:10

Roles and Their Siblings in Basic Formal Ontology

Fumiaki Toyoshima

12:10 – 1:00

Lunch

Outside Active Learning Center

1:00 – 1:30

The Future of SNOMED CT

Jim Case, SNOMED International

1:30 – 2:30

Panel discussion, Opportunities for collaboration between the OBO Foundry community and SNOMED

Panel: Jim Case, Chris Stoeckert, Peter Elkin, Barry Smith

Moderator: Olivier Bodenreider

2:30 – 2:50

Break

Session Chair 2:50 – 4: Alexander Diehl

2:50 – 3:10

OBO-Core Update

3:10 – 3:30

Foundations for a Realism-based Drug Repurposing Ontology

James Schuler, William Mangione, Ram Samudrala and Werner Ceusters

3:30 – 3:50

Early steps of an Ontology for Magnetic Resonance Imaging: MRIO

Lucas Serra, Michael Dwyer, William Duncan and Alexander D. Diehl

3:50 – 4:00

Closing remarks

4:00

End of ICBO 2019