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240ItIn Rudolf Haller & Wolfgang Grassl (eds.), Language, Logic and Philosophy, Reidel. 1980.A brief study of the logical, linguistic, psychological and ontological problem of ‘impersonalia’, which is to say of assertions such as ‘it’s raining’ or ‘es blitzt’ which seem to have no subject. Such assertions cause problems not only for defenders of traditional subject-predicate views of assertive sentences, but also for those, such as Frege, who defended a view in terms of functions and arguments.
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900Individuals, universals, collections: On the foundational relations of ontologyIn Achille Varzi Laure Vieu (ed.), ”, Formal Ontology in Information Systems. Proceedings of the Third International Conference, Ios Press. 2004.This paper provides an axiomatic formalization of a theory of foundational relations between three categories of entities: individuals, universals, and collections. We deal with a variety of relations between entities in these categories, including the is-a relation among universals and the part-of relation among individuals as well as cross-category relations such as instance-of, member-of, and partition-of. We show that an adequate understanding of the formal properties of such relations – in …Read more
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253On carcinomas and other pathological entitiesComparative and Functional Genomics 6 (7/8). 2005.Tumors, abscesses, cysts, scars, fractures are familiar types of what we shall call pathological continuant entities. The instances of such types exist always in or on anatomical structures, which thereby become transformed into pathological anatomical structures of corresponding types: a fractured tibia, a blistered thumb, a carcinomatous colon. In previous work on biomedical ontologies we showed how the provision of formal definitions for relations such as is_a, part_of and transform…Read more
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575Applying the Realism-Based Ontology-Versioning Method for Tracking Changes in the Basic Formal OntologyIn P. Garbacz & O. Kutz (eds.), Formal Ontology in Information Systems (FOIS 2014), Ios Press. pp. 227-240. 2014.Changes in an upper level ontology have obvious conse-quences for the domain ontologies that use it at lower levels. It is therefore crucial to document the changes made between successive versions of ontologies of this kind. We describe and apply a method for tracking, explaining and measuring changes between successive versions of upper level ontologies such as the Basic Formal Ontology (BFO). The proposed change-tracking method extends earlier work on Realism-Based Ontology Versioning (RBOV) …Read more
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350A realism-based approach to the evolution of biomedical ontologiesIn Proceedings of the Annual AMIA Symposium, American Medical Informatics Association. pp. 121-125. 2006.We present a novel methodology for calculating the improvements obtained in successive versions of biomedical ontologies. The theory takes into account changes both in reality itself and in our understanding of this reality. The successful application of the theory rests on the willingness of ontology authors to document changes they make by following a number of simple rules. The theory provides a pathway by which ontology authoring can become a science rather than an art, following principles …Read more
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1927Basic concepts of formal ontologyIn Nicola Guarino (ed.), Formal Ontology in Information Systems, Ios Press. pp. 19-28. 1998.The term ‘formal ontology’ was first used by the philosopher Edmund Husserl in his Logical Investigations to signify the study of those formal structures and relations – above all relations of part and whole – which are exemplified in the subject-matters of the different material sciences. We follow Husserl in presenting the basic concepts of formal ontology as falling into three groups: the theory of part and whole, the theory of dependence, and the theory of boundary, continuity and contact. T…Read more
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317Some Formal Moments of TruthIn Werner Leinfellner (ed.), Language and Ontology, Hölder-pichler-tempsky / Reidel. pp. 186-90. 1982.A preliminary statement of the formal theory of the truthmaker relation advanced in the paper “Truth-makers” (Mulligan, Simons and Smith) in 1984. Correspondence theories of truth have. I give a brief account of some more or less obvious formal characteristics of this almost forgotten basic truthmaker relation. I then attempt to show how this account may be extended to provide elements of a theory of truth which is in keeping with the spirit of Wittgenstein’s Tractatus.
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320Husserlian EcologyHuman Ontology (Kyoto) 7 9-24. 2001.If mind is a creature of adaptation, then our standard theories of intentionality and of mental representation are in need of considerable revision. For such theories, deriving under Cartesian inspiration from the work of Brentano, Husserl and their followers, are context-free. They conceive the subject of mental experience in isolation from any surrounding physico-biological environment. Husserl sought in his later writings to find room for the surrounding world of human practical experience, a…Read more
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358Maintaining systems of military plans is critical for military effectiveness, but is also challenging. Plans will become obsolete as the world diverges from the assumptions on which they rest. If too many ad hoc changes are made to intermeshed plans, the ensemble may no longer lead to well-synchronized and coordinated operations, resulting in the system of plans becoming itself incoherent. We describe in what follows an Adaptive Planning process that we are developing on behalf of the Air Force …Read more
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3288Visceral Values: Aurel Kolnai on DisgustIn Barry Smith & Carolyn Korsmeyer (eds.), Aurel Kolnai's On Disgust, Open Court Publishing Company. pp. 1-23. 2004.In 1929 when Aurel Kolnai published his essay “On Disgust” in Husserl's ]ahrbuch he could truly assert that disgust was a "sorely neglected" topic. Now, however, this situation is changing as philosophers, psychologists, and historians of culture are turning their attention not only to emotions in general but more specifically to the large and disturbing set of aversive emotions, including disgust. We here provide an account of Kolnai’s contribution to the study of the phenomenon of disgust, of …Read more
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220Les objets sociauxPhilosophiques 26 (2): 315-347. 1999.One reason for the renewed interest in Austrian philosophy, and especially in the work of Brentano and his followers, turns on the fact that analytic philosophers have become once again interested in the traditional problems of metaphysics. It was Brentano, Husserl, and the philosophers and psychologists whom they influenced, who drew attention to the thorny problem of intentionality, the problem of giving an account of the relation between acts and objects or, more generally, between the psycho…Read more
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861Features, Objects, and other Things: Ontological Distinctions in the Geographic DomainIn Daniel Montello (ed.), Spatial Information Theory: Foundations of Geographic Information Science, Springer. pp. 489-502. 2001.Two hundred and sixty-three subjects each gave examples for one of five geographic categories: geographic features, geographic objects, geographic concepts, something geographic, and something that could be portrayed on a map. The frequencies of various responses were significantly different, indicating that the basic ontological terms feature, object, etc., are not interchangeable but carry different meanings when combined with adjectives indicating geographic or mappable. For all of the test p…Read more
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252Austria and the rise of scientific philosophyIn Arkadiusz Chrudzimski & Wolfgang Huemer (eds.), Phenomenology and analysis: essays on Central European philosophy, Ontos. pp. 33-56. 2004.The term ‘Continental philosophy’ designates not philosophy on the continent of Europe as a whole, but rather a selective slice of Franco-German philosophy. Through a critical analysis of the arguments advanced by Otto Neurath, the paper addresses the issue of why Austrian philosophers in particular are not counted in the pantheon of Continental philosophers. Austrian philosophy is marked by the predominance of philosophical analysis and of the philosophy of science. The paper concludes that it …Read more
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431SNAP and SPAN: Towards dynamic spatial ontologySpatial Cognition and Computation 4 (1). 2004.We propose a modular ontology of the dynamic features of reality. This amounts, on the one hand, to a purely spatial ontology supporting snapshot views of the world at successive instants of time and, on the other hand, to a purely spatiotemporal ontology of change and process. We argue that dynamic spatial ontology must combine these two distinct types of inventory of the entities and relationships in reality, and we provide characterizations of spatiotemporal reasoning in the light of the inte…Read more
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793Realistic PhenomenologyIn Lester Embree (ed.), Encyclopedia of Phenomenology, Springer Science & Business Media. pp. 586-590. 1997.The tradition of realist phenomenology was founded in around 1902 by a group of students in Munich interested in the newly published Logical Investigations of Edmund Husserl. Initial members of the group included Johannes Daubert, Alexander Pfänder, Adolf Reinach and Max Scheler. With Reinach’s move to Göttingen the group acquired two new prominent members – Edith Stein and Roman Ingarden. The group’s method turned on Husserl’s idea that we are in possession a priori (which is to say: non-induct…Read more
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2009On Classifying Material Entities in Basic Formal OntologyIn Interdisciplinary Ontology: Proceedings of the Third Interdisciplinary Ontology Meeting, Keio University Press. pp. 1-13. 2012.Basic Formal Ontology was created in 2002 as an upper-level ontology to support the creation of consistent lower-level ontologies, initially in the subdomains of biomedical research, now also in other areas, including defense and security. BFO is currently undergoing revisions in preparation for the release of BFO version 2.0. We summarize some of the proposed revisions in what follows, focusing on BFO’s treatment of material entities, and specifically of the category object
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404From concepts to clinical reality: An essay on the benchmarking of biomedical terminologiesJournal of Biomedical Informatics 39 (3): 288-298. 2006.It is only by fixing on agreed meanings of terms in biomedical terminologies that we will be in a position to achieve that accumulation and integration of knowledge that is indispensable to progress at the frontiers of biomedicine. Standardly, the goal of fixing meanings is seen as being realized through the alignment of terms on what are called ‘concepts’. Part I addresses three versions of the concept-based approach – by Cimino, by Wüster, and by Campbell and associates – and surveys som…Read more
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182Von T. G. Masaryk bis Jan Patočka: Eine philosophische SkizzeIn J. Zumr & T. Binder (eds.), T. G. Masaryk und die Brentano-Schule, Czech Academy of Sciences. pp. 94-110. 1993.Thomas Garrigue Masaryk, later founder and President of the Republic of Czechoslovakia, studied philosophy in the University of Vienna from 1872 to 1876, where he came under the powerful influence of Franz Brentano. We survey the role of Brentano’s philosophy, and especially of his ethics, in Masaryk’s life and work.
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306Permanent generic relatedness and silent changeIn Niels Grewe, Ludger Jansen & Barry Smith (eds.), Formal Ontology and Information Systems, Ceur, Vol. 1060. pp. 1-5. 2016.Given the assertion of a relation between two types, like: “Epidermis has part some Keratinocyte”, we define silent change as any kind of change of the instance-relata of the relation in question that does not change the truth-value of the respective type-level assertion. Such assertions are notoriously difficult to model in OWL 2. To address this problem, we distinguish different modes of type-level relatedness giving rise to this problem and describe a conservative extension to the BFO top-le…Read more
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41Austrian Economics (Routledge Revivals): Historical and Philosophical Background (edited book)Croom Helm / Routledge. 1986.First published in 1986 and reprinted in 2010 in the Routledge Revivals series, this book presents the first detailed confrontation between the Austrian school of economics and Austrian philosophy, especially the philosophy of the Brentano school. It contains a study of the roots of Austrian economics in the liberal political theory of the nineteenth-century Hapsburg empire, and a study of the relations between the general theory of value underlying Austrian economics and the new economic approa…Read more
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696Strengths and Limitations of Formal Ontologies in the Biomedical DomainElectronic Journal of Communication, Information and Innovation in Health 3 (1): 31-45. 2009.We propose a typology of representational artifacts for health care and life sciences domains and associate this typology with different kinds of formal ontology and logic, drawing conclusions as to the strengths and limitations for ontology in a description logics framework. The four types of domain representation we consider are: (i) lexico-semantic representation, (ii) representation of types of entities, (iii) representations of background knowledge, and (iv) representation of individuals. W…Read more
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253Philosophie und biomedizinische ForschungAllgemeine Zeitschrift für Philosophie 30 (1). 2005.Die bahnbrechenden wissenschaftlichen Ergebnisse der letzten Jahre erzwingen eine neue philosophische Auseinandersetzung mit den Grundkategorien der Biologie und der benachbarten Disziplinen. Insbesondere die Anwendung neuer informationstechnischer Mittel in der biomedizinischen Forschung und die damit verbundene, kontinuierlich zunehmende Datenflut sowie die Notwendigkeit, ihrer Herr zu werden, erfordern ein konsequentes Nachdenken darüber, wie biologische Daten systematisiert und klassifizier…Read more
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1Interdisciplinary Ontology, Vol. 3: Proceedings of the Third Interdisciplinary Ontology Meeting (edited book)Keio University Press. 2010.
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727Diagrams, Documents, and the Meshing of PlansIn Andras Benedek & Kristof Nyiri (eds.), How To Do Things With Pictures: Skill, Practice, Performance, Peter Lang Edition. pp. 165--179. 2013.There are two important ways in which, when dealing with documents, we go beyond the boundaries of linear text. First, by incorporating diagrams into documents, and second, by creating complexes of intermeshed documents which may be extended in space and evolve and grow through time. The thesis of this paper is that such aggregations of documents are today indispensable to practically all complex human achievements from law and finance to orchestral performance and organized warfare. Documents p…Read more
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381The Role of Foundational Relations in the Alignment of Biomedical OntologiesIn M. Fieschi, E. Coiera & Y.-C. J. Li (eds.), Medinfo, Ios Press. pp. 444-448. 2004.The Foundational Model of Anatomy (FMA) symbolically represents the structural organization of the human body from the macromolecular to the macroscopic levels, with the goal of providing a robust and consistent scheme for classifying anatomical entities that is designed to serve as a reference ontology in biomedical informatics. Here we articulate the need for formally clarifying the is-a and part-of relations in the FMA and similar ontology and terminology systems. We diagnose certain characte…Read more
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248Switching Partners: Dancing with the Ontological EngineersIn Thomas Batcherer & Roderick Coover (eds.), Switching Codes: Thinking through Digital Technology in the Humanities and the Arts, University of Chicago Press. pp. 103--124. 2011.Ontologies are today being applied in almost every field to support the alignment and retrieval of data of distributed provenance. Here we focus on new ontological work on dance and on related cultural phenomena belonging to what UNESCO calls the “intangible heritage.” Currently data and information about dance, including video data, are stored in an uncontrolled variety of ad hoc ways. This serves not only to prevent retrieval, comparison and analysis of the data, but may also impinge on our ab…Read more
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689Law and eschatology in Wittgenstein's early thoughtInquiry: An Interdisciplinary Journal of Philosophy 21 (1-4). 1978.The paper investigates the role played by ethical deliberation and ethical judgment in Wittgenstein's early thought in the light of twentieth?century German legal philosophy. In particular the theories of the phenomenologists Adolf Reinach, Wilhelm Schapp, and Gerhart Husserl are singled out, as resting on ontologies which are structurally similar to that of the Tractatus: in each case it is actual and possible Sachverhalte which constitute the prime ontological category. The study of the relati…Read more
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297The integration of information resources in the life sciences is one of the most challenging problems facing bioinformatics today. We describe how Language and Computing nv, originally a developer of ontology-based natural language understanding systems for the healthcare domain, is developing a framework for the integration of structured data with unstructured information contained in natural language texts. L&C’s LinkSuite™ combines the flexibility of a modular software architecture with an on…Read more
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490Modelling Principles and Methodologies: Relations in Anatomical OntologiesIn Albert Burger, Duncan Davidson & Richard Baldock (eds.), Anatomy Ontologies for Bioinformatics: Principles and Practice, Springer. pp. 289--306. 2008.It is now increasingly accepted that many existing biological and medical ontologies can be improved by adopting tools and methods that bring a greater degree of logical and ontological rigor. In this chapter we will focus on the merits of a logically sound approach to ontologies from a methodological point of view. As we shall see, one crucial feature of a logically sound approach is that we have clear and functional definitions of the relational expressions such as ‘is a’ and ‘part of ’.
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203On the Phases of ReismIn Arkadiusz Chrudzimski & Dariusz Łukasiewicz (eds.), Actions, products, and things: Brentano and Polish philosophy, Ontos. pp. 137--183. 2006.Kotarbiński is one of the leading figures in the Lvov-Warsaw school of Polish philosophy. We summarize the development of Kotarbiński’s thought from his early nominalism and ‘pansomatistic reism’ to the later doctrine of ‘temporal phases’. We show that the surface clarity and simplicity of Kotarbiński’s writings mask a number of profound philosophical difficulties, connected above all with the problem of giving an adequate account of the truth of contingent (tensed) predications. The paper will …Read more
Barry Smith
University at Buffalo
National Center for Ontological Research
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University at BuffaloDepartment of Philosophy
Biomedical Informatics
Neurology
Computer Science and EngineeringDistinguished Professor, Julian Park Chair -
National Center for Ontological ResearchAdministrator
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APA Eastern Division
Buffalo, New York, United States of America
Areas of Specialization
Metaphysics |
Ontology |
Philosophy of Artificial Intelligence |
Philosophy of Biology |