Philosophical anthropologist Mircea Eliade once said that "the union of opposites" is a basic category of archaic ontology and comparative world religions. In this paper I develop the theory of contrariety or opposition as a prime focus for East/West comparative philosophy. The paper considers especially Nishida Kitaro's later works and the complex phrase "zettai mujuntekijikodbitsu," variously translated by Schinzinger as "absolute contradictory self-identity," "the self-identity of absolute contradictories," or more simply as "oneness" or "unity" of opposites.

A review of U. Mäki (ed.). Fact and Fiction in Economics, Cambridge: Cambridge University Press, 2003. pp. xvi 384. ISBN 0521 00957. As people interested mainly in theory, methodologists and philos...

In the era of “big data,” science is increasingly information driven, and the potential for computers to store, manage, and integrate massive amounts of data has given rise to such new disciplinary fields as biomedical informatics. Applied ontology offers a strategy for the organization of scientific information in computer-tractable form, drawing on concepts not only from computer and information science but also from linguistics, logic, and philosophy. This book provides an introduction to the field of applied ontology that is of (...) particular relevance to biomedicine, covering theoretical components of ontologies, best practices for ontology design, and examples of biomedical ontologies in use. After defining an ontology as a representation of the types of entities in a given domain, the book distinguishes between different kinds of ontologies and taxonomies, and shows how applied ontology draws on more traditional ideas from metaphysics. It presents the core features of the Basic Formal Ontology (BFO), now used by over one hundred ontology projects around the world, and offers examples of domain ontologies that utilize BFO. The book also describes Web Ontology Language (OWL), a common framework for Semantic Web technologies. Throughout, the book provides concrete recommendations for the design and construction of domain ontologies. (shrink)

The Common Core Ontologies(CCO) are designed as a mid-level ontology suite that extends the Basic Formal Ontology. In 2017,CUBRC, Inc. made CCO openly available. CCO has since been increasingly adopted by a broad group of users and applications and is proposed as the first standard mid-level ontology. Despite these successes, documentation of the contents and design patterns of the CCO has been comparatively minimal. This paper is a step toward providing enhanced documentation for the mid-level ontology suite through a (...) discussion of the contents of the eleven ontologies that collectively comprise the Common Core Ontology suite. (shrink)

This article addresses ontological negotiations in the Global South through three case studies of community-based research in Brazil and Ghana. We argue that ontological perspectives of Indigenous and other subjugated communities require an ontological pluralism that recognizes the plurality of both representational tools and ways of being in the world. Locating these two readings of ontological pluralism in the politics of the Global South, the article highlights a wider dynamic from ontological paternalism to ontological diversity to ontological decolonization. We conclude (...) by arguing that this dynamic provides important lessons for reorienting agendas in social ontology through Southern Ontologies. (shrink)

Could a person ever transcend what it is like to be in the world as a human being? Could we ever know what it is like to be other creatures? Questions about the overcoming of a human perspective are not uncommon in the history of philosophy. In the last century, those very interrogatives were notably raised by American philosopher Thomas Nagel in the context of philosophy of mind. In his 1974 essay What is it Like to Be a Bat?, Nagel (...) offered reflections on human subjectivity and its constraints. Nagel’s insights were elaborated before the social diffusion of computers and could not anticipate the cultural impact of technological artefacts capable of materializing interactive simulated worlds as well as disclosing virtual alternatives to the “self.” In this sense, this article proposes an understanding of computers as epistemological and ontological instruments. The embracing of a phenomenological standpoint entails that philosophical issues are engaged and understood from a fundamentally practical perspective. In terms of philosophical praxis, or “applied philosophy,” I explored the relationship between human phenomenologies and digital mediation through the design and the development of experimental video games. For instance, I have conceptualized the first-person action-adventure video game Haerfest (Technically Finished 2009) as a digital re-formulation of the questions posed in Nagel’s famous essay. Experiencing a bat’s perceptual equipment in Haerfest practically corroborates Nagel’s conclusions: there is no way for humans to map, reproduce, or even experience the consciousness of an actual bat. Although unverifiable in its correspondence to that of bats, Haerfest still grants access to experiences and perceptions that, albeit still inescapably within the boundaries of human kinds of phenomenologies, were inaccessible to humans prior to the advent of computers. Phenomenological alterations and virtual experiences disclosed by interactive digital media cannot take place without a shift in human kinds of ontologies, a shift which this study recognizes as the fundamental ground for the development of a new humanism (I deem it necessary to specify that I am not utilizing the term “humanism” in its common connotation, that is to say the one that emerged from the encounter between the Roman civilization and the late Hellenistic culture. According to this conventional acceptation, humanism indicates the realization of the human essence through “scholarship and training in good conduct” (Heidegger 1998, p. 244). However, Heidegger observed that this understanding of humanism does not truly cater to the original essence of human beings, but rather “is determined with regard to an already established interpretation of nature, history, world, and […] beings as a whole.” (Heidegger 1998, p. 245) The German thinker found this way of embracing humanism reductive: a by-product of Western metaphysics. As Heidegger himself specified in his 1949 essay Letter on Humanism, his opposition to the traditional acceptation of the term humanism does not advocate for the “inhuman” or a return to the “barbaric” but stems instead from the belief that the humanism can only be properly understood and restored in culture as more original way of meditating and caring for humanity and understanding its relationship with Being.). Additionally, this study explicitly proposes and exemplifies the use of interactive digital technology as a medium for testing, developing and disseminating philosophical notions, problems and hypotheses in ways which are alternative to the traditional textual one. Presented as virtual experiences, philosophical concepts can be accessed without the filter of subjective imagination. In a persistent, interactive, simulated environment, I claim that the crafting and the mediation of thought takes a novel, projective (In Martin Heidegger’s 1927 Being and Time, the term “projectivity” indicates the way a Being opens to the world in terms of its possibilities of being (Heidegger 1962, pp. 184–185, BT 145). Inspired by Heidegger’s and Vilem Flusser’s work in the field of philosophy of technology as well as Helmuth Plessner’s anthropological position presented in his 1928 book Die Stufen des Organischen und der Mensch. Einleitung in die philosophische Anthropologie, this study understands the concept of projectivity as the innate openness of human beings to construct themselves and their world by means of technical artefacts. In this sense, this study proposes a fundamental understanding of technology as the materialization of mankind’s tendency to overcome its physical, perceptual and communicative limitations.) dimension which I propose to call “augmented ontology.”. (shrink)

This paper examines evolutionary ontologies from Darwin’s work to the genesis and maturation of the Modern Evolutionary Synthesis, followed by the onset of the more inclusive framework of the Extended Evolutionary Synthesis. We show how, in an attempt to unify different biological fields under evolutionary principles, the first synthetic theory of evolution progressively disregarded the relevance of organismic-level properties and processes. Yet, failure to reduce the systemic nature and ecological dynamics of the organism (including properties of agency and organization) (...) to that framework raises some important drawbacks. In particular, the two fundamental dimensions of developmental and ecological dynamics were largely neglected. These are the ones that highlight the relational properties of organisms and lead to recent views in, respectively, Evo-Devo and Niche Construction Theory. On this account, we argue that these two aspects illuminate how, while the Modern Synthesis became increasingly reductionist and monistic, the Extended Synthesis is currently being constituted by a pluralistic array of models capable of accommodating different ontological levels, among which that of organisms stands out due to its flexibility and potential inclusiveness. (shrink)

We will survey a range of ontologies relevant to space and ground system domains. The ontologies form part of the Common Core Ontology ecosystem (CCO) developed under the IARPA KDD initiative. We focus specifically on the Space Domain Ontologies, a suite of ontologies to support space situational awareness, including the Spacecraft Mission Ontology, Spacecraft Ontology, Space Event Ontology and Space Object Ontology.

The potential of large language models (LLM) has captured the imagination of the public and researchers alike. In contrast to previous generations of machine learning models, LLMs are general-purpose tools, which can communicate with humans. In particular, they are able to define terms and answer factual questions based on some internally represented knowledge. Thus, LLMs support functionalities that are closely related to ontologies. In this perspective article, I will discuss the consequences of the advent of LLMs for the field (...) of applied ontology. (shrink)

Ontologies represent the standard way to model the knowledge about specific domains. This holds also for the legal domain where several ontologies have been put forward to model specific kinds of legal knowledge. Both for standard users and for law scholars, it is often difficult to have an overall view on the existing alternatives, their main features and their interlinking with the other ontologies. To answer this need, in this paper, we address an analysis of the state-of-the-art (...) in legal ontologies and we characterise them along with some distinctive features. This paper aims to guide generic users and law experts in selecting the legal ontology that better fits their needs and in understanding its specificity so that proper extensions to the selected model could be investigated. (shrink)

We begin at the beginning, with an outline of Aristotle’s views on ontology and with a discussion of the influence of these views on Linnaeus. We move from there to consider the data standardization initiatives launched in the 19th century, and then turn to investigate how the idea of computational ontologies developed in the AI and knowledge representation communities in the closing decades of the 20th century. We show how aspects of this idea, particularly those relating to the use (...) of the term 'concept' in ontology development, influenced SNOMED CT and other medical terminologies. Against this background we then show how the Foundational Model of Anatomy, the Gene Ontology, Basic Formal Ontology and other OBO Foundry ontologies came into existence and discuss their role in the development of contemporary biomedical informatics. (shrink)

Where humans can manipulate and integrate the information they receive in subtle and ever-changing ways from context to context, computers need structured and context-free background information of a sort which ontologies can help to provide. A domain ontology captures the stable, highly general and commonly accepted core knowledge for an application domain. The domain at issue here is that of the life sciences, in particular molecular biology and bioinformatics. Contemporary life science research includes components drawn from physics, chemistry, mathematics, (...) medicine and many other areas, and all of these dimensions, as well as fundamental philosophical issues, must be taken into account in the construction of a domain ontology. Here we describe the basic features of domain ontologies in the life sciences and show how they can be used. (shrink)

Patterns and pattern ontologies are a powerful way for pragmatists to address metaphysical issues by rejecting a false dichotomy between pluralism and realism. However, there is a common misconception about patterns that I call the philosophically perverse patterns (PPP) problem. Here, critics of patterns invent perverse examples that meet the metaphysical criteria to count as patterns. I defuse this concern by showing how PPP misunderstands what the pragmatist metaphysics of patterns is supposed to accomplish: the bare definition should not (...) rule out, or in, substantive examples of patterns that instead should involve methodological considerations. I use this response to the PPP problem to show how the metaphysical definition of 'pattern' allows the pragmatist to capture the rich intricacies of ontologies in the sciences and yields two illustrative norms by which methodology can be guided in developing or refining ontologies: cohesion and coherence. (shrink)

The explosion of interest in large language models (LLMs) has been accompanied by concerns over the extent to which generated outputs can be trusted, owing to the prevalence of bias, hallucinations, and so forth. Accordingly, there is a growing interest in the use of ontologies and knowledge graphs to make LLMs more trustworthy. This rests on the long history of ontologies and knowledge graphs in constructing human-comprehensible justification for model outputs as well as traceability concerning the impact of (...) evidence on other evidence. Understanding the nature of arguments and argumentation is critical to each, especially when LLM output conflicts with what is expected by users. The central contribution of this article is to extend the Arguments Ontology (ARGO) - an ontology specific to the domain of argumentation and evidence broadly construed - into the space of LLM fact-checking in the interest of promoting justification and traceability research through the use of ARGO-based ‘blueprints’. (shrink)

The current industrial revolution is said to be driven by the digitization that exploits connected information across all aspects of manufacturing. Standards have been recognized as an important enabler. Ontology-based information standard may provide benefits not offered by current information standards. Although there have been ontologies developed in the industrial manufacturing domain, they have been fragmented and inconsistent, and little has received a standard status. With successes in developing coherent ontologies in the biological, biomedical, and financial domains, an (...) effort called Industrial Ontologies Foundry (IOF) has been formed to pursue the same goal for the industrial manufacturing domain. However, developing a coherent ontology covering the entire industrial manufacturing domain has been known to be a mountainous challenge because of the multidisciplinary nature of manufacturing. To manage the scope and expectations, the IOF community kicked-off its effort with a proof-of-concept (POC) project. This paper describes the developments within the project. It also provides a brief update on the IOF organizational set up. (shrink)

As it emerged from philosophical analyses and cognitive research, most concepts exhibit typicality effects, and resist to the efforts of defining them in terms of necessary and sufficient conditions. This holds also in the case of many medical concepts. This is a problem for the design of computer science ontologies, since knowledge representation formalisms commonly adopted in this field (such as, in the first place, the Web Ontology Language - OWL) do not allow for the representation of concepts in (...) terms of typical traits. The need of representing concepts in terms of typical traits concerns almost every domain of real world knowledge, including medical domains. In particular, in this article we take into account the domain of mental disorders, starting from the DSM-5 descriptions of some specific disorders. We favour a hybrid approach to concept representation, in which ontology oriented formalisms are combined to a geometric representation of knowledge based on conceptual space. As a preliminary step to apply our proposal to mental disorder concepts, we started to develop an OWL ontology of the schizophrenia spectrum, which is as close as possible to the DSM-5 descriptions. (shrink)

Ontologies of Violence provides a new paradigm for understanding the concept of violence through comparative interpretations of French philosopher Jacques Derrida, philosophical theologians in the Mennonite pacifist tradition, and Grace M. Jantzen's feminist philosophy of religion. By drawing out and challenging the remarkably similar priorities shared by its three sources, and by challenging the assumption that differences necessarily lead to displacement, Ontologies of Violence provides a critical theory of violence by treating it as a diagnostic concept that implies (...) the violation of value-laden boundaries. (shrink)

A major use of medical ontologies is to support coding systems for use in electronic healthcare records and messages. A key task is to define which codes are to be used where – to bind the terminol...

Information entities are used in ontologies to represent engineering technical specifications, health records, pictures or librarian data about, e.g., narrative fictions, among others. The literature in applied ontology lacks a comparison of the state of the art, and foundational questions on the nature of information entities remain open for research. The purpose of the paper is twofold. First, to compare existing ontologies with both each other and theories proposed in philosophy, semiotics, librarianship, and literary studies in order to (...) understand how the ontologies conceive and model information entities. Second, to discuss some open research challenges that can lead to principled approaches for the treatment of information entities, possibly by getting into account the variety of information entity types found in the literature. (shrink)

While the presence of monsters in popular culture is ever-increasing, their use as an explicit or implicit category to frame, stigmatise, and demonise the other is seemingly on the rise. At the same time, academic interest for monsters is ever-growing. Usually, monstrosity is understood as a category that emerges to signal a transgression to a given order; this approach has led to the demystification of the insidious characterisations of the (racial, sexual, physical) other as monstrous. While this effort has been (...) necessary, its collateral effects have reduced the monstrous to a mere (socio-cultural) construction of the other: a dialectical framing that de facto deprives monstrosity from any reality. 'Monstrous Ontologies: Politics, Ethics, Materiality' proffers the necessity of challenging these monstrous otherings and their perverse socio-political effects, whilst also asserting that the monstrous is not simply an epistemological construct, but that it has an ontological reality. There is a profound difference between monsters and monstrosity. While the former is an often sterile political and social simplification, the end-product of rhetorical and biopolitical apparatuses; the latter may be understood as a dimension that nurtures the un-definable, that is, that shows the limits of these apparatuses by embodying their material excess: not a 'cultural frame', but the limit to the very mechanism of 'framing'. The monstrous expresses the combining, hybridising, becoming, and creative potential of socio-natural life, albeit colouring this powerful vitalism with the dark hue of a fearful, disgusting, and ultimately indigestible reality that cannot simply be embraced with multicultural naivety. As such, it forces us towards radically changing not the categories, but the very mechanisms of categorisation through which reality is framed and acted upon. Here lies the profound ethical dimension that monstrosity forces us to acknowledge; here lies its profoundly political potential, one that cannot be unfolded by merely deconstructing monstrosity, and rather requires to engage with its uncomfortable, appalling, and revealing materiality. This book will appeal to postgraduate students, PostDocs, and academics alike in the fields of philosophy, critical theory, humanities, sociology and social theory, criminology, human geography, and critical legal theory. (shrink)

Several authors have suggested that a more parsimonious and conceptually elegant treatment of everyday mereological and topological reasoning can be obtained by adopting a spatial ontology in which regions, not points, are the primitive entities. This paper challenges this suggestion for mereotopological reasoning in two-dimensional space. Our strategy is to define a mereotopological language together with a familiar, point-based interpretation. It is proposed that, to be practically useful, any alternative region-based spatial ontology must support the same sentences in our language (...) as this familiar interpretation. This proposal has the merit of transforming a vague, open-ended question about ontologies for practical mereotopological reasoning into a precise question in model theory. We show that (a version of) the familiar interpretation is countable and atomic, and therefore prime. We conclude that useful alternative ontologies of the plane are, if anything, less parsimonious than the one which they are supposed to replace. (shrink)

We have begun work on two separate but related ontologies for the study of neurological diseases. The first, the Neurological Disease Ontology (ND), is intended to provide a set of controlled, logically connected classes to describe the range of neurological diseases and their associated signs and symptoms, assessments, diagnoses, and interventions that are encountered in the course of clinical practice. ND is built as an extension of the Ontology for General Medical Sciences — a high-level candidate OBO Foundry ontology (...) that provides a set of general classes that can be used to describe general aspects of medical science. ND is being built with classes utilizing both textual and axiomatized definitions that describe and formalize the relations between instances of other classes within the ontology itself as well as to external ontologies such as the Gene Ontology, Cell Ontology, Protein Ontology, and Chemical Entities of Biological Interest. In addition, references to similar or associated terms in external ontologies, vocabularies and terminologies are included when possible. Initial work on ND is focused on the areas of Alzheimer’s and other diseases associated with dementia, multiple sclerosis, and stroke and cerebrovascular disease. Extensions to additional groups of neurological diseases are planned. The second ontology, the Neuro-Psychological Testing Ontology (NPT), is intended to provide a set of classes for the annotation of neuropsychological testing data. The intention of this ontology is to allow for the integration of results from a variety of neuropsychological tests that assay similar measures of cognitive functioning. Neuro-psychological testing is an important component in developing the clinical picture used in the diagnosis of patients with a range of neurological diseases, such as Alzheimer’s disease and multiple sclerosis, and following stroke or traumatic brain injury. NPT is being developed as an extension to the Ontology for Biomedical Investigations. (shrink)

This paper studies European chemists’ shifting ontologies of materials by comparing the ways in which they classified materials. The focus is on plant materials, their different identities, and the changing ways chemists sorted out and ordered plant materials in the eighteenth and early nineteenth centuries. The main goals of the paper are to follow the development of plant materials from ordinary, everyday materials and commodities in the early eighteenth century to purified carbon compounds and organic substances familiar only to (...) experts in the 1830s, and to reconstruct chemists’ ways of classifying these objects in different practical and intellectual contexts.The study of changes in European chemists’ ways of classifying plant materials over more than a century brings to the foreground a trajectory of ontological shifts that is ‘punctuated’ in the 1750s, the 1790s, and the 1830s. Early eighteenth-century plant materials, which were commodities of the apothecary trade and other arts and crafts, were elevated epistemically as compound components or ‘proximate principles’ of plants in the 1750s, reduced to organic compounds in the 1790s, and replaced by carbon compounds in the 1830s. The last, third transformation of the epistemic constitution of materials and the mode of their classification was accompanied by a deep transformation of the material culture of plant chemistry. After the late 1830s, many of the eighteenth-century vegetable commodities disappeared from chemists’ agenda or were split into different substances individuated and identified in new ways. Coal tar products, and new organic artefacts containing chlorine or bromine, entered the chemical laboratory in the 1820s and became fused with the purified rest of the previous plant and animal substances. The material objects of the new culture of organic chemistry became detached from the materials applied in the extant arts and crafts. It was only in the late 1850s, with the rise of the synthetic dye industry, that a great number of these laboratory substances became involved in industrial production.Keywords: Commodities and scientific objects; Historical ontology; Classification; Plant chemistry; Organic chemistry. (shrink)

Biomedical ontologies exist to serve integration of clinical and experimental data, and it is critical to their success that they be put to widespread use in the annotation of data. How, then, can ontologies achieve the sort of user-friendliness, reliability, cost-effectiveness, and breadth of coverage that is necessary to ensure extensive usage? Methods: Our focus here is on two different sets of answers to these questions that have been proposed, on the one hand in medicine, by the SNOMED (...) CT community, and on the other hand in biology, by the OBO Foundry. We address more specifically the issue as to how adherence to certain development principles can advance the usability and effectiveness of an ontology or terminology resource, for example by allowing more accurate maintenance, more reliable application, and more efficient interoperation with other ontologies and information resources. Results: SNOMED CT and the OBO Foundry differ considerably in their general approach.Nevertheless, a general trend towards more formal rigor and cross-domain interoperability can be seen in both and we argue that this trend should be accepted by all similar initiatives in the future. Conclusions: Future efforts in ontology development have to address the need for harmonization and integration of ontologies across disciplinary borders, and for this, coherent formalization of ontologies is a prerequisite. (shrink)

The assignment events, objects, state of beings, etc., to an experiential category is a fundamental activity carried out by human (and by other animals). So rudimentary are the processes involved in categorizing that it is indeed impossible to imagine conscious awareness to exist without the presence of categories. A considerable body of writing exists on categories dating from the times of Classical philosophy. Plato developed a categorical ontology and Aristotle produced one of the earliest examples of a complex understanding of (...) basic ontologies. A number of other categorially structured ontologies have been proposed including those by Lowe, Westerhoff, Chisholm, etc. The book is an edited collection of up to the moment essays that address critical aspects on the understanding of categories and categorial systems. The perspectives included in the book are drawn from philosophy, psychology, theology, divinity, comparative cognition and facet theory. The authors are all renowned experts in the area of their writing. Topics addressed include both contemporary advances in the understanding of perennial debates and latest thinking upon how categories are employed to structure our experiences of the world we live in. The book is distinct as being written by philosophers and psychologists. The book is a collection of writings from selected academics at the fore of debates and understandings of categories in contemporary thought. The text provides a single source for contemporary scholarship in categories. No single text that brings together expositions of categorial experiences for students and academics within the above listed disciplines. (shrink)

Part of a special issue, Ontologies of Living Beings, guest-edited by A. M. Ferner and Thomas Pradeu.

The problem of concept representation is relevant for many sub-fields of cognitive research, including psychology and philosophy, as well as artificial intelligence. In particular, in recent years it has received a great deal of attention within the field of knowledge representation, due to its relevance for both knowledge engineering as well as ontology-based technologies. However, the notion of a concept itself turns out to be highly disputed and problematic. In our opinion, one of the causes of this state of affairs (...) is that the notion of a concept is, to some extent, heterogeneous, and encompasses different cognitive phenomena. This results in a strain between conflicting requirements, such as compositionality, on the one hand and the need to represent prototypical information on the other. In some ways artificial intelligence research shows traces of this situation. In this paper, we propose an analysis of this current state of affairs. Since it is our opinion that a mature methodology with which to approach knowledge representation and knowledge engineering should also take advantage of the empirical results of cognitive psychology concerning human abilities, we outline some proposals for concept representation in formal ontologies, which take into account suggestions from psychological research. Our basic assumption is that knowledge representation systems whose design takes into account evidence from experimental psychology may therefore give better results in many applications. (shrink)

Ontologies and thesauri structure concepts and, from the perspective of a practitioner, do not appear to be very different. Nevertheless, experts acknowledge that ontologies are different from thesauri in several respects. In this paper we aim to clarify some of the similarities and differences by systematically comparing the structure of each: the relations and their relata in ontologies and the relationships and their relata in thesauri. In particular, we analyze thesaurus relationships and their relata as they are (...) defined in the latest version of the international (ISO) thesaurus standard against formally well-defined ontological relationships and relata from ontology literature – more specifically ontology literature based in realism. We have found that the relata as well as the relationships in thesauri need to be classified further before any reasonable matching to formal ontological relationships is possible. Isolated hierarchical relationships in thesauri then may correspond to the is-a relationship, specific mereological relationships, or fundamental relationships such as the instantiation between universals and individuals in ontologies. Determining how such correspondences apply in domain-specific cases depends on whether the thesaurus relationships contribute to the specifications of necessary and sufficient conditions for their respective relata in the ontology – a function that relationships do not have in thesauri. Our findings make it clear that thesauri require structural and definitional reengineering in order to be reused or treated as ontologies, but that adherence to the international standard for thesauri provides a good base for such reengineering. (shrink)

An ontology is a domain of knowledge structured through formal rules so that it can be interpreted and used by computers. Ontologies are becoming increasingly important in bioinformatics because they can be linked to the information in databases and their knowledge then used to query the databases. Typical examples in current use are the Gene Ontology, which incorporates much of our knowledge about gene products, and ontologies of developmental anatomy, which, for example, facilitate tissue‐based queries to gene expression (...) databases both textually and spatially. This article considers the production, formulation and types of bio‐ontologies together with the reasons why they are so useful. © BioEssays 25:501–506, 2003. © 2003 Wiley Periodicals, Inc. (shrink)

The task of designing an ontology through reuse is difficult, and a major challenge in this effort is choosing between different ontologies that are candidates for reuse. To address this challenge,...

The distinction between reference ontologies and application ontologies crept rather unobtrusively into the recent literature on knowledge engineering. A lot of the discourse surrounding this distinction – notably, the one framing the workshop generating this collection of papers – suggests the two types of ontologies are in some sort of opposition to one another. Thus, Borge et al. [3] characterize reference ontologies (more recently, foundational ontologies) as rich, axiomatic theories whose focus is to clarify the (...) intended meanings of terms used in specific domains. Application ontologies, by contrast, provide a minimal terminological structure to fit the needs of a specific community. Reflecting their minimal nature, Masolo et al. [7] refer to such ontologies as “lightweight” ontologies. An application ontology can be lightweight in a second respect as well, namely, that it may not necessarily take the form of fully-fledged axiomatic theory. Rather, it might only be a taxonomy of the relevant domain, a division of the domain into a salient collection of classes, perhaps ordered by the subclass relation. Importantly, though, for an application ontology to “fit the needs of a specific community” needn’t require representational accuracy. In the “worst” case (from a reference ontology perspective), to fit the needs of a community is just to represent uncritically what people in that community think about the ontology’s domain. (shrink)

Contents: POSSIBLE ONTOLOGIES. Jacek Juliusz JADACKI: Preface. Book I: Zdzis??l??aw AUGUSTYNEK: Point Eventism. An Outline of a Certain Ontology. Book II: Jacek Juliusz JADACKI: Ontological Minimum. DISCUSSIONS. Katarzyna PAPRZYCKA: Carnap and Leibniz on the Problem of Being. Piotr PRZYBYSZ: Polish Discussions about Reism.

The purpose of this paper is to propose a framework of lexical meaning, broadly along the lines of Cognitive Semantics (Langacker 1987a). Within the proposed model, all aspects of meaning are to be explained in terms of properties of ontologies in conceptual space, i.e. properties of content ontologies and schematic ontologies and construals which are imposed on the conceptual structures on the occasion of use. It is through the operations of construals on ontological structures that different readings (...) of lexical expressions arise. Lexical meanings are dynamic and sensitive to contextual demands, rather than fixed and stable. In a dynamic, usage-based model like this, polysemy and multiple readings emerge as a natural consequence of the human ability to think flexibly. Another more specific purpose of this paper is to draw attention to the usefulness of ontologies in linguistic research in general and semantic modelling in particular. (shrink)

As it emerged from philosophical analyses and cognitive research, most concepts exhibit typicality effects, and resist to the efforts of defining them in terms of necessary and sufficient conditions. This holds also in the case of many medical concepts. This is a problem for the design of computer science ontologies, since knowledge representation formalisms commonly adopted in this field do not allow for the representation of concepts in terms of typical traits. However, the need of representing concepts in terms (...) of typical traits concerns almost every domain of real world knowledge, including medical domains. In particular, in this article we take into account the domain of mental disorders, starting from the DSM-5 descriptions of some specific mental disorders. On this respect, we favor a hybrid approach to the representation of psychiatric concepts, in which ontology oriented formalisms are combined to a geometric representation of knowledge based on conceptual spaces. (shrink)

Current controversies about knowledge integration reflect conflicting ideas of what it means to “take Indigenous knowledge seriously”. While there is increased interest in integrating Indigenous and Western scientific knowledge in various disciplines such as anthropology and ethnobiology, integration projects are often accused of recognizing Indigenous knowledge only insofar as it is useful for Western scientists. The aim of this article is to use tools from philosophy of science to develop a model of both successful integration and integration failures. On the (...) one hand, I argue that cross-cultural recognition of property clusters leads to an ontological overlap that makes knowledge integration often epistemically productive and socially useful. On the other hand, I argue that knowledge integration is limited by ontological divergence. Adequate models of Indigenous knowledge will therefore have to take integration failures seriously and I argue that integration efforts need to be complemented by a political notion of ontological self-determination. (shrink)

Achieving space situational awareness requires, at a minimum, the identification, characterization, and tracking of space objects. Leveraging the resultant space object data for purposes such as hostile threat assessment, object identification, and conjunction assessment presents major challenges. This is in part because in characterizing space objects we reference a variety of identifiers, components, subsystems, capabilities, vulnerabilities, origins, missions, orbital elements, patterns of life, operational processes, operational statuses, and so forth, which tend to be defined in highly heterogeneous and sometimes inconsistent (...) ways. The Space Domain Ontologies are designed to provide a consensus-based realist framework for formulating such characterizations in a way that is both consistent and computable. Space object data are aligned with classes and relations in a suite of ontologies built around the existing Space Object Ontology. They are stored in a dynamically updated Resource Description Framework triple store, which can be queried to support space situational awareness and the needs of spacecraft operators and analysts. This paper provides an overview of the Space Domain Ontologies and their development and use. It presents the motivation for and advantages of the Space Domain Ontologies, including the benefits they provide for enhancing and maintaining long-term space situational awareness. (shrink)

Merging of ontologies is a frequently addressed problem in the ontology literature. This paper argues that in general two even very similar ontologies cannot be merged. Further, where two ontologies can be merged their conceptualizations are special. They are systems of institutional facts which are interlocking. The argument is based on the literature of the federated database problem and on the concepts of speech act and institutional fact.