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[http://medicine.buffalo.edu/news_and_events/news/2020/07/smith-ontology-covid-11561.html Using Ontology as Powerful Weapon in COVID-19 Fight], July 14, 2020 | |||
[http://www.buffalo.edu/news/releases/2020/06/016.html Leveraging a powerful weapon in the fight against COVID-19 — ontology], June 10, 2020 | [http://www.buffalo.edu/news/releases/2020/06/016.html Leveraging a powerful weapon in the fight against COVID-19 — ontology], June 10, 2020 | ||
Revision as of 20:09, 14 July 2020
The goal of the National Center for Ontological Research is to advance ontological investigation within the United States. NCOR serves as a vehicle to coordinate, to enhance, to publicize, and to seek funding for ontological research activities. It lays a special focus on ontology training and on the establishment of tools and measures for quality assurance of ontologies. NCOR provides ontology services to multiple organizations, including the US Department of Defense.
Events
See here
News
Using Ontology as Powerful Weapon in COVID-19 Fight, July 14, 2020
Leveraging a powerful weapon in the fight against COVID-19 — ontology, June 10, 2020
UB workshop to address human and machine capabilities, April 20, 2018
Working group seeks to extend the depth and functionality of biomedical ontologies, October 14, 2017
Barry Smith wins 2016 IAOA Ontology Competition, August 18, 2016
Doctoral Candidate Invited to Work on United Nations Project, January 4, 2016
Advantages of the Financial Report Ontology in Accounting Research, February 23, 2013
UB Ontologists Win Bioinformatics Integration Award to Support National Institutes of Health
Announcing Clinical and Translational Science Ontology Affinity Group
Information Overload in the Era of Big Data
Botanists building ontologies to cope with information overload
UB Applied Informatics Portal unveiled.
Courses
Problems in Ontology, Department of Philosophy, University at Buffalo, NY, Mondays from 4-6pm, August 29 - December 5, 2012
Ontological Engineering, Department of Industrial and Systems Engineering, University at Buffalo, NY, Fall 2013
Ontological Engineering, Department of Industrial and Systems Engineering, Department of Computer Science and Department of Philosophy University at Buffalo, NY, Mondays from 4-7pm, August 25 - December 1, 2014
Analytical Metaphysics, Department of Philosophy, University at Buffalo, NY, Tuesdays 1-3:50pm, Spring Semester, 2016
Biomedical Ontology Departments of Philosophy and Biomedical Informatics, University at Buffalo, Fall Semester 2016
Applied Ontology 2017, Spring Semester Online Course, Department of Philosophy, University at Buffalo
Advanced Biomedical Ontology 2017, Fall Semester, Departments of Philosophy and Biomedical Informatics, University at Buffalo
Ontological Engineering, 2018, Spring Semester, online course, Departments of Philosophy and Industrial and Systems Engineering, University at Buffalo
Applied Ontology: An Introduction, Stanislaw Kaminski Memorial Lectures, The John Paul II Catholic University of Lublin, Poland, May 14-18, 2018
Tutorials
Systems Engineering Boot Camp, University at Buffalo, January 26, 2018
How to Develop and Use OBO Foundry Ontologies, Tutorial and Workshop at ICBO, Graz, Austria, July 21, 2012
Basic Formal Ontology 2.0: Tutorial at ICBO/FOIS, Graz, Austria, July 25, 2012
Introduction to Protégé, Tutorial, Buffalo, NY, August 11-12, 2012
Basic Formal Ontology 2.0, Tutorial, Buffalo, NY, August 18-19, 2012
Tutorial: Information Ontologies for the Intelligence Community, STIDS Conference, November 11, 2013
Tutorial: Ontology of Military Planning and Operations Assessment, STIDS Conference, November 18, 2014
Tutorial: Basic Formal Ontology 2015, International Conference on Biomedical Ontology, Lisbon, 2015
Defining Ontology
An ontology is a representation of some part of reality, (e.g. medicine, social reality, physics, etc.). Smith states that: “Ontology is the science of what is, of the kinds and structures of objects, properties, events, processes and relations in every area of reality…Ontology seeks to provide a definitive and exhaustive classification of entities in all spheres of being.”1 To be an accurate representation of reality an ontology includes the types of entities and events in a given domain (along with their definitions) arranged in a hierarchical structure, along with relations (such as part-of, depends-on, caused-by, etc. where necessary). Ontologies enable the formulation of robust and shareable descriptions of a given domain by providing a common controlled vocabulary for doctrine writers, IT Developers, and war-fighters alike, thereby allowing these disparate communities to communicate with each other. An ontology should be a shared resource between communities, and its continued collaborative development should support the integration of information and facilitate knowledge discovery.2 These two goals are realized by ensuring wide dissemination of the ontology, so that it will be used by many stakeholders, and its terms will be correspondingly familiar and readily used for search.
The Philosophome
Semantics of Biodiversity
Paper: Semantics in Support of Biodiversity Knowledge Discovery (PLoS ONE, 2013)
Video Presentations from: Semantics of Biodiversity Workshop (2012)
- Building Darwin Core top-down in BFO
- Organisms, photographs, media
- How to re-use ontologies
- Principles of singular nouns, secondary use, understandability
- Writing good definitions (DwC Examples)
- Management strategies
- Ontologies for reuse (BFO, EnvO, IDO, OBI, Plant Ontology , Uberon, IAO)
- Educational resources (OBI, Protege, BFO)
Finance and Economics
An Application of Basic Formal Ontology to the Ontology of Services and Commodities, Institute for Business Informatics, University of Koblenz, Germany July 23, 2013
Barry Smith, Reference Data Integration: A Strategy for the Future, Financial Reference Data Management Conference (FIMA), New York, March 2012
Information Ontology
BFO-based data and information ontologies
Military and Intelligence Ontology
JFCOM: Semantic Web and Joint Training (2010)
I2WD: Semantic Enhancement for DSGS-A: Distributed Development of a Shared Semantic Resource (2012-13)
I2WD: PED Fusion via Enterprise Ontology
Common Core Ontologies (preliminary statement)
Ontology for Navy Systems Engineering
Ontology of Planning
Ontology of Engineering
BFO-Based Engineering Ontologies
Bob Young: Towards a Reference Ontology for Manufacturing (2016)
Interoperable Manufacturing Knowledge Systems (2017)
Ontology for Navy Systems Engineering
Materials Ontology
Ontology for Clinical and Translational Science
Clinical and Translational Science Ontology Group
Microbiome Ontology
Ontology
What Biofilms Can Teach Us about Individuality
Designing an Ontology Tool for the Unification of Biofilms Data
Eearth Microbiome Project Ontlogy EMPO
The Human Microbiome
Functional and phylogenetic assembly of microbial communities in the human microbiome
The human microbiome, including as appendix: A microbiome glossary
Parts and Wholes: The Human Microbiome, Ecological Ontology, and the Challenges of Community
Microbiomes and the external environment
A communal catalogue reveals Earth’s multiscale microbial diversity
MetaSUB: Metagenomics and Metadesign of Subways & Urban Biome
Tracking human sewage microbiome in a municipal wastewater treatment plant
Varia
Collective bio-molecular processes: The hidden ontology of systems biology
A review of methods and databases for metagenomic classification and assembly
Suggested Reading
Coordinated Evolution of Biomedical Ontologies
Avoiding Perspective-Relative Silos
Training Videos
Ontology for Intelligence, Defense and Security
A Repeatable Process for Ontology Development
Avoiding Semantic Stovepipes: Five Ontological Principles for Interoperability
