About Program
- Conference Dates: August 28th to September 1st (Monday-Friday)
- Workshops and tutorials: August 28th - 29th, 2023
- Main conference: August 30th - September 1st, 2023
Workshops
- W1: Ontologies for Infectious and Immune-mediated Disease Data Science (Full-day)
Co-organizers: Asiyah Yu Lin, Alexander Diehl, John Beverley, and Lindsay Cowell
Hybrid workshop (both in-person and virtual participation) - In english - W2: The 7th International Cells in Experimental Life Science Workshop, CELLS 2023
(Half-day)
Co-organizers: Alexander D. Diehl and Yongqun "Oliver" He
Hybrid workshop (both in-person and virtual participation) - In english - W3: 12th Vaccine and Drug Ontology Studies (VDOS) 2023 Workshop (Half-day)
Co-organizers: Junguk Hur, Cui Tao, and Yongqun "Oliver" He
Virtual workshop with Transmission to In-Person Participants - In english - PDF Presentation - W4: FOHTI-23 (FAIR Ontology Harmonization and Trust Data Interoperability)
(Half-day)
Are ontologies really FAIR? Exploring the challenges and opportunity for improvement
Co-organizers: Anna Maria Masci and Asiyah Yu Lin
Virtual workshop with Transmission to In-Person Participants - In english
Tutorials
- T1: Natural Language Processing Tutorial for Biomedical Text Mining (Half-day)
Co-organizers: Senay Kafkas, Sumyyah Toonsi, Sakhaa Alsaedi
Virtual Tutorial with Transmission to In-Person Participants - In english - T2: OBO Foundry Tutorial: Introduction to workflows and best practices for ontology
development (Half-day)
Co-organizers: Nicole Vasilevsky, Nico Matentzoglu and Tiago Lubiana
Hybrid tutorial (both in-person and virtual participation) - In english
Tutorial agenda. - T3: BFO as a top-level ontology for information systems modeling (Full-day)
Co-organizers: Maurício B. Almeida, Jeanne L. Emygdio and Fernanda Farinelli
Hybrid tutorial (both in-person and virtual participation) - In portuguese - T4: Machine Learning with Ontologies (Half-day)
Co-organizers: Maxat Kulmanov, Robert Hoehndorf, Sarah Alghamdi, Azza Althagafi, Sumyyah Toonsi, Fernando Zhapa-Camacho
Hybrid tutorial (both in-person and virtual participation) - In english - T5: Ontology-Driven Conceptual Modeling with UFO, gUFO, and OntoUML (Half-day)
Organizer: Giancarlo Guizzardi
Hybrid tutorial (both in-person and virtual participation) - In portuguese
Alma Sírio-Libanês Panel
Theme: Ontologies Application in the Brazilian Health Area
Coordinator: Dr. Beatriz de Faria Leão
Panel Lists:
- Beatriz de Faria Leão: Introduction - Ontologies in Health Hospital Sírio Libanês, São Paulo
- Fabio Cerqueira Lario: The role of ontologies in electronic medical record systems Hospital Sírio Libanês, São Paulo
- Jussara Rötzsch Macedo: The contribution of SNOMED-CT to the Brazilian National Health Data Network (RNDS)
- Joice Machado: Use of SNOMED-CT sub-ontologies in the automatic identification of allergies and adverse reactions in clinical notes SOFYA - Plug and Play Deep Medical AIs
- Robson Mattos: OBM – The Brazilian Ontology of Medicines CGIIS/SEIDIGI Digital/Ministry of Health of Brazil
Software Demo
Ontology Development in FHIR Resources with the Fast Evidence Interoperability Resources (FEvIR) Platform
Presenter: Caue Monaco
Tool link: https://fevir.net
Background image
As a screen background suggestion in virtual participation software, the following wallpaper is indicated.
General Schedule
| Schedule | August 28th | August 29th | August 30rd | August 31st | September 1st | |||
|---|---|---|---|---|---|---|---|---|
| Morning | 08:00-08:30 | Registration and networking | ||||||
| 08:30-09:00 | Opening session | Keynote talk 3: Barry Smith (virtual***) Main Room |
Keynote talk 4: Renata Guizzardi (in person***) Main Room |
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| 09:00-10:00 | Keynote talk 1: Mathias Brochhausen (in person***) Main Room |
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| 10:00-10:15 | Coffee-break | Coffee-break | ||||||
| 10:15-10:30 | Papers presentations Session 2 Main/BCE Room |
Papers presentation Session 4 Main/BCE Room |
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| 10:30-10:45 | Coffee-break | |||||||
| 10:45-11:45 | Papers presentations Session 1 Main/BCE Room |
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| 11:45-13:30 | Lunch time | |||||||
| Afternoon | 13:30-15:00 | Keynote talk 2: Maurício Barcellos (in person***) Main Room |
Alma Sírio-Libanês Panel Main Room |
Papers presentations Session 5 Main/BCE Room |
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| 15:00-15:15 | Coffee-break | Flash talks** | Closing session Main Room |
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| 15:15-15:30 | Poster and Software Demo session and Welcome reception Hall FCI |
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| 15:30-15:45 | Coffee-break | |||||||
| 15:45-17:45 | Papers presentations Session 3 Main/BCE Room |
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| Evening | 18:30-21:30 | Social Dinner | ||||||
* Parallel ICBO and Ontobras papers presentations
** Flash talks for posters/software demos
*** "Virtual" signifies that the keynote presentation will be delivered online, with a transmission to participants attending in person. On the other hand, "In person" indicates that the keynote presentation will be given physically, with a transmission to participants joining online.
NOTE: Paper presentations of the ICBO and Ontobras papers will be parallel.
The number of seats for workshops and tutorials is limited due to the capacity of the physical and virtual rooms.
In order to better accommodate participants, please complete this form to indicate your workshop/tutorial preferences.
Schedule Details
We are pleased to provide you with the detailed schedule for each session, including the respective papers that will be presented. Please find the following information outlining the sequence of sessions and the corresponding paper presentations.
Monday, August 28, 2023 (breakfast on your own)
Morning
08:00 - 08:30 Registration and networking
08:30 - 10:00 W1: Ontologies for Infectious and Immune-mediated Disease Data Science (Full-day)
08:30 - 10:00 T1: Natural Language Processing Tutorial for Biomedical Text Mining (Half-day)
10:00 - 10:15 Coffee-break
10:15 - 11:45 W1: Ontologies for Infectious and Immune-mediated Disease Data Science (Full-day)
10:15 - 11:45 T1: Natural Language Processing Tutorial for Biomedical Text Mining (Half-day)
11:45 - 13:30 Lunch Time
Afternoon
13:30 - 15:00 W1: Ontologies for Infectious and Immune-mediated Disease Data Science (Full-day)
13:30 - 15:00 T2: OBO Foundry Tutorial: Introduction to workflows and best practices for ontology development (Half-day)
13:30 - 15:00 T5: Ontology-Driven Conceptual Modeling with UFO, gUFO, and OntoUML (Half-day)
15:00 - 15:15 Coffee-break
15:15 - 17:45 W1: Ontologies for Infectious and Immune-mediated Disease Data Science (Full-day)
15:15 - 17:45 T2: OBO Foundry Tutorial: Introduction to workflows and best practices for ontology development (Half-day)
15:15 - 17:45 T5: Ontology-Driven Conceptual Modeling with UFO, gUFO, and OntoUML (Half-day)
Tuesday, August 29, 2023 (breakfast on your own)
Morning
08:00 - 08:30 Registration and networking
08:30 - 10:00 T3: BFO as a top-level ontology for information systems modeling (Half-day)
08:30 - 10:00 W3: 12th Vaccine and Drug Ontology Studies (VDOS) 2023 Workshop (Half-day)
08:30 - 10:00 T4: Machine Learning with Ontologies (Half-day)
10:00 - 10:15 Coffee-break
10:15 - 11:45 T3: BFO as a top-level ontology for information systems modeling (Half-day)
10:15 - 11:45 W3: 12th Vaccine and Drug Ontology Studies (VDOS) 2023 Workshop (Half-day)
10:15 - 11:45 T4: Machine Learning with Ontologies (Half-day)
11:45 - 13:30 Lunch Time
Afternoon
13:30 - 15:00 T3: BFO as a top-level ontology for information systems modeling (Half-day)
13:30 - 15:00 W4: FOHTI-23 (FAIR Ontology Harmonization and Trust Data Interoperability) (Half-day)
13:30 - 15:00 W2: The 7th International Cells in Experimental Life Science Workshop, CELLS 2023 (Half-day)
15:00 - 15:15 Coffee-break
15:15 - 17:45 T3: BFO as a top-level ontology for information systems modeling (Half-day)
15:15 - 17:45 W4: FOHTI-23 (FAIR Ontology Harmonization and Trust Data Interoperability) (Half-day)
15:15 - 17:45 W2: The 7th International Cells in Experimental Life Science Workshop, CELLS 2023 (Half-day)
Wednesday, August 30, 2023 (breakfast on your own)
Morning
08:00 - 08:30 Registration and networking
08:30 - 09:00 Opening Session
Keynote talk 1:
09:00 - 10:30 Mathias Brochhausen: IMPROVING ONTOLOGIES TO FOSTER AI IN BIOMEDICINE
10:30 - 10:45 Coffee-break
10:45 - 11:45 Papers presentations Session 1 (Parallel ICBO and Ontobras papers presentations)
10:45 - 11:10 Version control for interdependent ontologies: challenges and first propositions [journal]
Authors: Paul Fabry, Adrien Barton, Jean-Francois Ethier
11:15 - 11:40 Improving the classification of cardinality phenotypes using collections
Authors: Sarah Alghamdi, Robert Hoehndorf - Virtual Presenter
11:45 - 13:30 Lunch Time
Afternoon
Keynote talk 2:
13:30 - 15:00 Maurício Barcellos: A BFO-BASED AUTHORITY FRAMEWORK FOR HEALTHCARE CORPORATIONS
15:00 - 15:15 Flash talks (for posters/software demos)
15:15 - 17:45 Poster and Software Demo session and Welcome reception
Thursday, August 31, 2023 (breakfast on your own)
Morning
08:00 - 08:30 Registration and networking
Keynote talk 3:
08:30 - 10:00 Barry Smith: USE OF AI IN MEDICAL RESEARCH, AND THE ROLE OF ONTOLOGY
10:00 - 10:15 Coffee-break
10:15 - 11:45 Papers presentations session 2 (Parallel ICBO and Ontobras papers presentations)
10:15 - 10:40 An Extendible Realism-Based Ontology for Kinship
Authors: Michael Rabenberg, Anuwat Pengput and Werner Ceusters - Virtual Presenter
10:45 - 11:10 The OntoWoH Ontology - a Women's Health Reference Ontology Detailing the Fragment of Climacteric and Menopause
Authors: Cilenir Carla de Carvalho, Andreia Soprani dos Santos, Silvia Das Dores Rissino, Susana Bubach
and Maria Das Graças Da Silva Teixeira - Attendee In-Person
11:15 - 11:40 Ontology-based representation and analysis of conditional vaccine immune responses using Omics data
Authors: Anthony Huffman, Edison Ong, Tim Brunson, Nasim Sanati, Jie Zheng, Anna Maria Masci, Guanming Wu and Yongqun He - Virtual Presenter
11:45 - 13:30 Lunch Time
Afternoon
13:30 - 15:30 Alma Sírio-Libanês Panel
15:30 - 15:45 Coffee-break
15:45 - 18:30 Papers presentations session 3(Parallel ICBO and Ontobras papers presentations)
15:45 - 16:10 The potential of ontologies for the empirical assessment of machine learning techniques in operational oceanography processes
Author: Enrique Wulff - Virtual Presenter
16:15 - 16:40 An Application of Natural Language Processing and Ontologies to Electronic Healthcare Records in the Field of Gynecology
Authors: Amanda Damasceno de Souza, Fernanda Farinelli, Eduardo Ribeiro Felipe, Armando Sérgio de Aguiar Filho
and Mauricio Barcellos Almeida - Attendee In Persion
16:45 - 17:10 Leveraging Biomedical Ontologies to Boost Performance of BERT-Based Models for Answering Medical MCQs
Authors: Sahil and P Sreenivasa Kumar - Virtual Presenter
17:15 - 17:40 Principles of ontology-based annotation of clinical narratives
Authors: Stefan Schulz, Warren Del-Pinto, Lifeng Han, Markus Kreuzthaler, Sareh Aghaei Dinani and Goran Nenadic - Attendee In Persion
17:45 - 18:10 Concrete Names for Complex Expressions in Ontologies: A Survey of Biomedical Ontologies
Authors: Christian Kindermann and Martin Georg Skjæveland - Virtual Presenter
Evening
18:30 - 20:45 Social Dinner
Friday, September 1, 2023 (breakfast on your own)
Morning
08:00 - 08:30 Registration and networking
Keynote talk 4
08:30 - 10:00 Renata Guizzardi: ETHICAL REQUIREMENTS FOR AI SYSTEMS
10:00 - 10:15 Coffee-break
10:15 - 11:55 Papers presentations session 4(Parallel ICBO and Ontobras papers presentations)
10:15 - 10:40 Using ontology embeddings with deep learning architectures to improve prediction of ontology concepts from literature
Authors: Pratik Devkota, Somya Mohanty and Prashanti Manda - Virtual Presenter
10:45 - 11:10 KOSonto: an ontology for knowledge organization systems, their constituents, and their referents
Authors: Jean Noël Nikiema, Fleur Mougin, Vianney Jouhet and Stefan Schulz - Attendee In-Person
11:15 - 11:30 Beyond the Goods-Service Continuum
Authors: Peter Koch and Barry Smith - Virtual Presenter
11:35 - 11:50 Ontology-based Integration of Consumer Data and EHR Systems to Fill Gaps in Social Determinants of Health Data
Authors: S. Clint Dowland, Melody Greer, Sudeepa Bhattacharyya and Mathias Brochhausen - Attendee In-Person
11:55 - 13:30 Lunch Time
Afternoon
13:30 - 15:00 Papers presentations 5 (Parallel ICBO and Ontobras papers presentations)
13:30 - 13:55 An Ontology for Obsessive-Compulsive Disorder with Reuse and Enrichment
Authors: Areej Muhajab, Alia Abdelmoty and Athanasios Hassoulas - Virtual Presenter
14:00 - 14:25 An ontology for mammography screening recommendation
Authors: Cindy Acuña, Yasmine Anchén, Edelweis Rohrer and Regina Motz - Attendee In-Person
14:30 - 14:55 Exploring the Use of Ontology Components for Distantly-Supervised Disease and Phenotype Named Entity Recognition
Authors: Sumyyah Toonsi, Senay Kafkas and Robert Hoehndorf - Virtual Presenter
15:00 - 15:15 Closing session
Transportation (Hotel-Conference-Hotel)
Kindly arrive at the designated pickup location 5 minutes ahead of the scheduled time, as the bus won't be able to wait on the street.
Details regarding timings and stops locations:
- Following that, the first pickup point will be in front of the Melia Brasil 21 Hotel - Tower "A" at 7:15 AM.
- The second pickup point will be situated in front of the Ramada Brasília Alvorada Hotel at 7:20 AM.
- The third pickup point is scheduled in front of the Grand Mercure Brasilia Eixo Monumental at 7:30 AM.
- Lastly, the final pickup location will be in front of the Fusion and Vision Suites (Hplus Vision Executive), at 7:32 AM
New Link for Keynotes presentations
To watch the keynotes at the ICBO-Ontobras 2023 conference, use the new link with password: