Barry Smith

University at Buffalo
National Center for Ontological Research
  • University at Buffalo
    Department of Philosophy
    Biomedical Informatics
    Neurology
    Computer Science and Engineering
    Distinguished Professor, Julian Park Chair
  • National Center for Ontological Research
    Administrator
  • Università della Svizzera Italiana
    Institute of Philosophy (ISFI)
    Visiting Professor (Part-time)
University of Manchester
Department of Philosophy
PhD, 1976
APA Eastern Division
CV
Buffalo, New York, United States of America
  •  210
    The Formal Structure of Ecological Contexts
    In Paolo Bouquet, Patrick Brezillon, Francesca Castellani & Luciano Serafini (eds.), Modeling and Using Context. Proceedings of the Second International and Interdisciplinary Conference, Springer. 1999.
    This is an informal presentation of the theory of niches understood as ecological contexts. The first part sets out the basic conceptual background. The second part outlines the main principles of the theory and addresses the question of how the theory can be extended to aid our thinking in relation to the special types of causal integrity that characterize niches and niched entities.
  •  623
    Ontology for the Intelligence Analyst
    CrossTalk 14 (Nov/Dec): 18-25. 2012.
    As available intelligence data and information expand in both quantity and variety, new techniques must be deployed for search and analytics. One technique involves the semantic enhancement of data through the creation of what are called ‘ontologies’ or ‘controlled vocabularies.’ When multiple different bodies of heterogeneous data are tagged by means of terms from common ontologies, then these data become linked together in ways which allow more effective retrieval and integration. We describe …Read more
  •  470
    The Ontology of Biological and Clinical Statistics (OBCS) for standardized and reproducible statistical analysis
    with Jie Zheng, Marcelline R. Harris, Anna Maria Masci, Lin Yu, Alfred Hero, and Yongqun He
    Journal of Biomedical Semantics 7 (53). 2016.
    Statistics play a critical role in biological and clinical research. However, most reports of scientific results in the published literature make it difficult for the reader to reproduce the statistical analyses performed in achieving those results because they provide inadequate documentation of the statistical tests and algorithms applied. The Ontology of Biological and Clinical Statistics (OBCS) is put forward here as a step towards solving this problem. Terms in OBCS, including ‘data collect…Read more
  •  448
    Boundaries: A Brentanian Theory
    Brentano Studien 8 107-114. 1998.
    According to Brentano's theory of boundaries, no boundary can exist without being connected with a continuum. But there is no specifiable part of the continuum, and no point, which is such that we may say that it is the existence of that part or of that point which conditions the boundary. - An adequate theory of the continuum must now recognize that boundaries be boundaries only in certain directions and not in others. This leads to consequences in other areas, too.
  •  3485
    Applied Ontology: An Introduction (edited book)
    ontos. 2008.
    Ontology is the philosophical discipline which aims to understand how things in the world are divided into categories and how these categories are related together. This is exactly what information scientists aim for in creating structured, automated representations, called 'ontologies,' for managing information in fields such as science, government, industry, and healthcare. Currently, these systems are designed in a variety of different ways, so they cannot share data with one another. They ar…Read more
  •  459
    German philosophy: Language and style
    Topoi 10 (2): 155-161. 1991.
    The remarks which follow are intended to address a certain apparent asymmetry as between German and Anglo-Saxon philosophy. Put most simply, it is clear to every philosopher moving backwards and forwards between the two languages that the translation of an Anglo-Saxophone philosophical text into German is in general a much easier task than is the translation of a German philosophical text into English. The hypothesis suggests itself immediately that this is so because English philosophical writ…Read more
  •  465
    Towards a Reference Terminology for Ontology Research and Development in the Biomedical Domain
    with Waclaw Kusnierczyk, Daniel Schober, ,, and Werner Ceusters
    In Barry Smith, Waclaw Kusnierczyk, Daniel Schober & Werner Ceusters (eds.), Proceedings of KR-MED, CEUR, vol. 222, . pp. 57-65. 2006.
    Ontology is a burgeoning field, involving researchers from the computer science, philosophy, data and software engineering, logic, linguistics, and terminology domains. Many ontology-related terms with precise meanings in one of these domains have different meanings in others. Our purpose here is to initiate a path towards disambiguation of such terms. We draw primarily on the literature of biomedical informatics, not least because the problems caused by unclear or ambiguous use of terms have be…Read more
  •  696
    Representing Mental Functioning: Ontologies for Mental Health and Disease
    with Janna Hastings, Werner Ceusters, Mark Jensen, and Kevin Mulligan
    In Janna Hastings, Werner Ceusters, Mark Jensen, Kevin Mulligan & Barry Smith (eds.), Towards an Ontology of Mental Functioning (ICBO Workshop), Ceur. 2012.
    Mental and behavioral disorders represent a significant portion of the public health burden in all countries. The human cost of these disorders is immense, yet treatment options for sufferers are currently limited, with many patients failing to respond sufficiently to available interventions and drugs. High quality ontologies facilitate data aggregation and comparison across different disciplines, and may therefore speed up the translation of primary research into novel therapeutics. Realism-based…Read more
  •  615
    This paper is concerned with certain ontological issues in the foundations of geographic representation. It sets out what these basic issues are, describes the tools needed to deal with them, and draws some implications for a general theory of spatial representation. Our approach has ramifications in the domains of mereology, topology, and the theory of location, and the question of the interaction of these three domains within a unified spatial representation theory is addressed. In the final p…Read more
  •  674
    Naive physics
    Philosophical Psychology 7 (2). 1994.
    The project of a 'naive physics' has been the subject of attention in recent years above all in the artificial intelligence field, in connection with work on common-sense reasoning, perceptual representation and robotics. The idea of a theory of the common-sense world is however much older than this, having its roots not least in the work of phenomenologists and Gestalt psychologists such as K hler, Husserl, Schapp and Gibson. This paper seeks to show how contemporary naive physicists can profit…Read more
  •  498
    Why Polish philosophy does not exist
    In J. Jadacki & J. Pasniczek (eds.), The Lvov-Warsaw School: The New Generation, Reidel. pp. 19-39. 2006.
    Why have Polish philosophers fared so badly as concerns their admission into the pantheon of Continental Philosophers? Why, for example, should Heidegger and Derrida be included in this pantheon, but not Ingarden or Tarski? Why, to put the question from another side, should there be so close an association in Poland between philosophy and logic, and between philosophy and science? We distinguish a series of answers to this question, which are dealt with under the following headings: (a) the role…Read more
  •  580
    Aristoteles, Kant und die Quantenphysik
    In Ruth Hagengruber (ed.), Philosophie und Wissenschaft, Königshausen Und Neumann. pp. 79-97. 2002.
    Der folgende Vortrag hat zwei Teile. Teil 1 hat mit dem Internet zu tun und mit neuen Entwicklungen im Bereich des so genannten „ontological engineering“. Teil 2 hat zu tun mit der kantischen Philosophie und mit neuen Versuchen, diese Philosophie mit Hilfe der Quantenphysik zu unterstützen. Diese zwei Teile sind nicht vollkommen unabhängig voneinander, aber die Verbindung zwischen den zwei Teilen wird erst im Laufe des Vortrags klar werden.
  •  479
    Beyond Paper
    The Monist 97 (2). 2014.
    The authors outline the way in which documents as social objects have evolved from their earliest forms to the electronic documents of the present day. They note that while certain features have remained consistent, processes regarding document authentication are seriously complicated by the easy reproducibility of digital entities. The authors argue that electronic documents also raise significant questions concerning the theory of ‘documentality’ advanced by Maurizio Ferraris, especially given…Read more
  •  166
    Deferenza testuale
    Divus Thomas 24 (3): 92-116. 1999.
    Works of philosophy written in English have spawned a massive secondary literature dealing with ideas, problems or arguments. But they have almost never given rise to works of ‘commentary’ in the strict sense, a genre which is however a dominant literary form not only in the Confucian, Vedantic, Islamic, Jewish and Scholastic traditions, but also in relation to more recent German-language philosophy. Yet Anglo-Saxon philosophers have themselves embraced the commentary form when dealing with Gree…Read more
  •  283
    Edmund Husserl: Briefwechsel (Husserliana Dokumente III). (review)
    Husserl Studies 12 (1): 98-104. 1995.
    This edition of Husserl's correspondence comprises 10 volumes. Its philosophical core is contained in the first four volumes, which correspond to the four phases of Husserl's philosophical career: as follower of Brentano, as mentor of the realist phenomenologists in Munich (the founders of the 'phenomenological movement'), and as professor, successively, in Göttingen and Freiburg. The remaining five volumes pertain to HusserI's correspondence with philosophers and other scholars outside the inne…Read more
  •  538
    Per Husserl, come per Bolzano, la logica e una dottrina della sdenza. Husserl prende pero piu sul serio l'idea che le teorie scientifiche siano costituite dagli atti mentali di soggetti conoscenti. Quella che segue e un' esposizione della concezione husserliana della logica e della scienza, fondata appunto sugli atti; essa approdera a una delineazione dell'idea husserliana di «ontologia formale».
  •  436
    L’Autriche et la naissance de la philosophie scientifique
    Actes de la Recherche En Sciences Sociales 109 (1). 1995.
    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
  •  861
    The substance of Brentano's ontology
    Topoi 6 (1): 39-49. 1987.
    This paper is a study of Brentano’s ontology, and more specifically of his theory of substance and accident as put forward toward the end of his life in the materials collected together as the Kategorienlehre or Theory of Categories. Here Brentano presents an auditious (re-)interpretation of Aristotle’s theory of substance and accidence. We show that on the Brentano initially defends, it is space which serves as the single substance upon which all other entities depend as accidents of space. In …Read more
  •  678
    Definitions in ontologies
    with Selja Seppälä, Alan Ruttenberg, and Yonatan Schreiber
    Cahiers de Lexicologie 109 (2). 2016.
    Definitions vary according to context of use and target audience. They must be made relevant for each context to fulfill their cognitive and linguistic goals. This involves adapting their logical structure, type of content, and form to each context of use. We examine from these perspectives the case of definitions in ontologies.
  •  1202
    Real Estate: Foundations of the Ontology of Property
    In Heiner Stuckenschmidt, Erik Stubjkaer & Christoph Schlieder (eds.), The Ontology and Modelling of Real Estate Transactions, Ashgate. pp. 51-67. 2003.
    Suppose you own a garden-variety object such as a hat or a shirt. Your property right then follows the ageold saw according to which possession is nine-tenths of the law. That is, your possession of a shirt constitutes a strong presumption in favor of your ownership of the shirt. In the case of land, however, this is not the case. Here possession is not only not a strong presumption in favor of ownership; it is not even clear what possession is. Possessing a thing like a hat or a shirt is a rath…Read more
  •  1087
    Classifying Processes: An Essay in Applied Ontology
    Ratio 25 (4): 463-488. 2012.
    We begin by describing recent developments in the burgeoning discipline of applied ontology, focusing especially on the ways ontologies are providing a means for the consistent representation of scientific data. We then introduce Basic Formal Ontology (BFO), a top-level ontology that is serving as domain-neutral framework for the development of lower level ontologies in many specialist disciplines, above all in biology and medicine. BFO is a bicategorial ontology, embracing both three-dimensiona…Read more
  •  427
    Biomarkers in the Ontology for General Medical Science
    with Werner Ceusters
    In Ronald Cornet (ed.), Digital Healthcare Empowering Europeans, Ios Press. pp. 155-159. 2015.
    Based on the Ontology for General Medical Science, we propose definitions for biomarkers of various types of. These definitions provide not only a complete formal representation of what biomarkers are according to the Institute of Medicine (IOM), but also remove the ambiguities and inconsistencies encountered in the documentation provided by the IOM.
  •  505
    Framework for a protein ontology
    with Darren A. Natale, Cecilia N. Arighi, Winona Barker, Judith Blake, Ti-Cheng Chang, Zhangzhi Hu, Hongfang Liu, and Cathy H. Wu
    BMC Bioinformatics 8 (Suppl 9). 2007.
    Biomedical ontologies are emerging as critical tools in genomic and proteomic research where complex data in disparate resources need to be integrated. A number of ontologies exist that describe the properties that can be attributed to proteins; for example, protein functions are described by Gene Ontology, while human diseases are described by Disease Ontology. There is, however, a gap in the current set of ontologies—one that describes the protein entities themselves and their relations…Read more
  •  2574
    Knowing How vs. Knowing That
    In J. C. Nyíri & Barry Smith (eds.), Practical Knowledge: Outlines of a Theory of Traditions and Skills, Croom Helm. pp. 1-16. 1988.
    A sketch of the history of the opposition between propositional and practical knowledge is followed by a brief account of the relevant ideas of Merleau-Ponty, Polanyi, and H. and S. Dreyfus (on expertise and artificial intelligence). The paper concludes with a discussion of the work of Ryle on the notion of a ‘discipline’, drawing implications for a theory of traditions.
  •  693
    The Neurath-Haller Thesis: Austria and the Rise of Scientific Philosophy
    In Keith Lehrer & Johann Christian Marek (eds.), Austrian Philosophy Past and Present, Kluwer Academic Publishers. pp. 1-20. 1997.
    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
  •  416
    Theories of Judgment
    with Artur Rojszczak
    In Thomas Baldwin (ed.), The Cambridge History of Philosophy 1870-1945, Cambridge University Press. pp. 157--173. 2003.
    The dominant theory of judgment in 1870 was one or other variety of combination theory: the act of judgment is an act of combining concepts or ideas in the mind of the judging subject. In the decades to follow a succession of alternative theories arose to address defects in the combination theory, starting with Bolzano’s theory of propositions in themselves, Brentano’s theory of judgment as affirmation or denial of existence, theories distinguishing judgment act from judgment content advanced by…Read more
  •  306
    Practices of Art
    In J. C. Nyíri & Barry Smith (eds.), Practical Knowledge: Outlines of a Theory of Traditions and Skills, Croom Helm. pp. 172-209. 1988.
    Starting out from the ontology of human work set out by Marx in Das Kapital, the paper seeks to analyse the relations between the artist and his actions and aims, the work of art he produces, and the audience for this work. The paper concludes with a discussion of the problem of creativity in the arts, drawing on ideas of Roman Ingarden and other phenomenologists.
  •  1621
    The Space Object Ontology
    with Alexander P. Cox, Christopher Nebelecky, Ronald Rudnicki, William Tagliaferri, and John L. Crassidis
    In Alexander P. Cox, Christopher Nebelecky, Ronald Rudnicki, William Tagliaferri, John L. Crassidis & Barry Smith (eds.), 19th International Conference on Information Fusion (FUSION 2016), Ieee. 2016.
    Achieving space domain awareness requires the identification, characterization, and tracking of space objects. Storing and leveraging associated space object data for purposes such as hostile threat assessment, object identification, and collision prediction and avoidance present further challenges. Space objects are characterized according to a variety of parameters including their identifiers, design specifications, components, subsystems, capabilities, vulnerabilities, origins, missio…Read more
  •  335
    Investigating Subsumption in SNOMED CT: An Exploration into Large Description Logic-Based Biomedical Terminologies
    with Olivier Bodenreider, Anand Kumar, and Anita Burgun
    Artificial Intelligence in Medicine 39 (3): 183-195. 2007.
    Formalisms based on one or other flavor of Description Logic (DL) are sometimes put forward as helping to ensure that terminologies and controlled vocabularies comply with sound ontological principles. The objective of this paper is to study the degree to which one DL-based biomedical terminology (SNOMED CT) does indeed comply with such principles. We defined seven ontological principles (for example: each class must have at least one parent, each class must differ from its parent) and examined …Read more
  •  284
    Philosophy and Biomedical Information Systems
    with Bert Klagges
    In Katherine Munn & Barry Smith (eds.), Applied Ontology: An Introduction, Ontos. pp. 17-30. 2008.
    The pathbreaking scientific advances of recent years call for a new philosophical consideration of the fundamental categories of biology and its neighboring disciplines. Above all, the new information technologies used in biomedical research, and the necessity to master the continuously growing flood of data that is associated therewith, demand a profound and systematic reflection on the systematization and classification of biological data. This, however, demands robust theories of basic concep…Read more