Barry Smith, National Center for Ontological Research

This book addresses the important, 2000 year old challenge of how to soundly formalize the content and organization of scientific knowledge. As a user and teacher of ontological methods in medicine and engineering, I have for years warned my students that the design of domain ontologies is a black art with no theoretical foundations and few practical principles. Without progress on the problem, I argue, many fields ranging from informatics and computer science to AI and cognitive science will struggle to achieve their enormous potential, or to do so in a way that is convincing or safe. I now have a much more positive story for my students. Arp, Smith, and Spear have pulled together years of experience and lessons learned in diverse application domains into a treasure trove of guidance and good practice for the ontology builder. In the journey from black art to a truly scientific theory for ontology design, this book is an important milestone.

—John Fox, Department of Engineering Science, University of Oxford; Director, OpenClinical

Contents
Amazon
MIT Press
Preview on Google Books

Teaching (Fall 2016): Biomedical Ontology

Formal Ontology in Information Systems (FOIS)
Annecy, France, July 6-9, 2016

International Summer School on Web Science and Technology
Bilbao, Spain, July 18-22, 2016

International Conference on Biomedical Ontology (ICBO)
Corvallis, Oregon, August 1-4, 2016

Clinical Terminology Shock and Awe
5th Clinical and Translational Science Ontology Workshop, Buffalo, NY, September 7-8, 2016

Turbine Engine Technology (TETS)
Dayton, OH, September 12-15, 2016

ZiF-Konferenz: Big Data
Center for Interdisciplinary Research, Bielefeld, October 25, 2016

Normative Drawings and Deontic Artifacts
University of Cagliari, Sardinia, October 27-28, 2016


Video Presentations and Training Materials

	Basic Formal Ontology 2.0 (2015) The Emotion Ontology (2015) About Aboutness (2015) Towards an Ontology of Philosophy (2015) Metaphysics After Darwin (2015) Commanding and Other Social Acts (2015) How to Build an Imaging Ontology (2015 Ontology of Poker (2014)	The Ontology of Disease (2014) Document Acts and the Ontology of Social Reality (2014) Mind, Language and Emotions (2014) Semantics of Biodiversity (2013) Massively Planned Social Agency (2013) Information Ontologies for the Intelligence Community (2013) Intelligence, Defense and Security (2012) Video Introductions to Ontology

Department of Philosophy	Vita: Long / Short / NIH		Ontology Research Group (ORG)
University at Buffalo	Publications / PubMed / Google Scholar		National Center for Ontological Research (NCOR)
Contact	HL7 Watch / FHIR and Ontology		ImmPort: Bioinformatics for the Future of Immunology
Varia	Buffalo Ontology Site		Institute for Formal Ontology and Medical Information Science (IFOMIS)
FORMAL ONTOLOGY
Basic Formal Ontology (BFO)
A Realist Logic with Applications	Individuals, Universals and Collections		Substances, Accidents and Universals
Granular Partitions	Fiat Objects		Dependence Relations
Mereotopology	Dynamic Spatial Ontology		Framework for Formal Ontology
ONTOLOGY DEVELOPMENT
Ontological Realism	Ontology Terminology		Ontology as Reality Representation
Ontology: An Introduction	Referent Tracking		Ontology (Science)
BIOMEDICAL ONTOLOGY, TERMINOLOGY AND EHRS
The OBO Foundry	Ontology for Biomedical Investigations		EHRs and Medical Terminologies
Ontology for General Medical Science	Biomedical Imaging Ontologies		Relations in Biomedical Ontologies
Infectious Disease Ontology	Immunology Ontologies		Neurological Disease Ontology
BIOLOGICAL ONTOLOGY
Gene Ontology	Protein Ontology		Plant Ontology
Biodiversity	Embryontology		Planteome/ Common Reference Ontologies for Plant Science (CROPS)
GEOSPATIAL ONTOLOGY
Geographic Ontology Buffalo Geographic Norms	Do Mountains Exist?		Ontological Tools for Geographic Representation
Ontology of Real Estate	The Ontology of the Eruv		Environment Ontology
United Nations Environment Programme (UNEP) Sustainable Development Goals Interface Ontology (SDGIO) · Press notice
INTELLIGENCE, DEFENSE AND SECURITY ONTOLOGY
Ontology for the Intelligence Analyst	Data Integration through Semantic Enhancement		Horizontal Integration of Intelligence Data
Joint Doctrine Ontology and Military Information Systems Interoperability	Universal Core Semantic Layer		IAO-Intel: An Ontology of Information Artifacts in the Intelligence Domain
An Ontological Approach to Territorial Disputes	A Multi-INT Semantic Reasoning Framework for Intelligence Analysis Support		Ontological Support for Living Plan Specification, Execution and Evaluation
	Space Object Ontolology
COGNITIVE, LINGUISTIC AND SOCIAL ONTOLOGY
Emotion Ontology	Mental Functioning Ontology		Ontology of Mental Disease
Information Artifact Ontology	Roman Ingarden: Ontology and Theory of Literature		Speech Act Theory
Document Acts / Document Ontology	Reference and Intentionality		Social Objects / Austrian Economics
PHILOSOPHICAL ONTOLOGY
Against Fantology	The Philosophome		Truthmakers
BOOKS
Free Online Parts and Moments: Studies in Logic and Formal Ontology Foundations of Gestalt Theory Austrian Philosophy The Mystery of Capital and the Construction of Social Reality Applied Ontology: An Introduction		John Searle The Cambridge Companion to Husserl Austrian Economics Building Ontologies with Basic Formal Ontology