The paper is the summary of a wider work, a research program. The hypothesis is that if Fundamental Ontology is apophatic – that is, if it has the same dialectical nature (relationality-substantiality) as the Trinity – we can accept that Trinity is also apophatic. The apophatic-relational explanation may sound odd, but it is the most honest one, because it does not hide the problems under the carpet. What emerges is a coherent form of Trinitarian Theism – since there (...) is correspondence between the human (un)ability to know the two levels of reality (the World and God) – that is based on an inevitable relational-apophatic paradigm. The apophaticism that we see in the Trinity (and in ontology) ensures that Trinitarian Theism can neither be proven nor disproven. (shrink)

The author contextualizes the Problem of Evil in Open Theism system, listing its main theses, primarily the logic-of- love-defense (and free-will-defense) connected to Trinitarian speculation. After evaluating the discussion in Analytic Philosophy of Religion, the focus is on the personal mystery of evil, claiming that, because of mystery and vagueness, the Problem of Evil is undecidable. Recalling other schools of thought (Pareyson: ontology of freedom; Moltmann: Dialectical theology; Kenotic theology; Original Sin hermeneutics), the author tries to grasp their (...) common insights. One of them is the evident explanatory failure of theodicies, expressed in the antinomian statements ‘God is not innocent’. The author follows these insights, developing the concept of Eternal Immolation (Bulgakov), arguing that, without a proper understanding of its mystery (what is, and what is not), theistic theodicy could remain compromised. ‘Eternal Immolation’ is considered consequent – or already present – in recent speculations, it stands or falls when we accept that these reveal some unresolved points in Christian doctrine. Hence, ‘Eternal Immolation’ becomes a coordinating-concept, able to bring together their assumptions: several kinds of kenosis, the ontology of freedom with a logic-of-love defense, strongly linked to a libertarian human freedom, and the acknowledgement of the unresolved mystery of evil. (shrink)

The Author proposes to describe the possible foundations of a Trinitarian theism that may be a philosophically adequate translation of the Johannine declaration: “God is love”, introduced by some contemporary thinkers as a key to resolving some aporias within classic theism. This is done by way of analysis of Trinitarian ontology and relational ontology, for which there is an attempt to provide a shareable phenomenological basis. The paper then goes on to questions of epistemology (hyperphatic theology) (...) linked to the ability of human reason and human language to express the categories introduced in this analysis, categories that are nothing else but a renewed philosophical appreciation of the terminology proper to Trinitarian speculation. (shrink)

The philosophical thought of Massimo Cacciari and the conceptual issues of « open theism » are two speculative routes apparently very distant from each other. This contribution highlights the common goal in their going to the root of philosophic problems in order to seek an answer: they think of a divine way of becoming explaining the reason of both the reality of the world and the paradoxical reality of human freedom. The two routes tend to converge and recover concepts pertaining (...) to the Trinitarian speculation whose philosophical « translation » in philosophy passes, today, through the relational and trinitarian ontology, and also the « iperphatic » theology. In this convergence there is ground for thinking not only a truly Trinitarian theism, but also a Trinitarian philosophy, which considers Trinity as the essential summit of a good metaphysics. (shrink)

Origen of Alexandria can be credited as the founder of a Christian speculative angelology, in which Christ the Logos is both the creator and the interpreter of the angels. He introduces the angels as the first created rational beings who, in contemplating the divine Word (Logos), freely choose to direct their will as holy angels in service to or wicked demons in antagonism against the love of God. The first created rational beings are divided into three orders: the angels, the (...) demons, and the neutral spirits of human souls. The angels remain closest in contemplation of the Logos, yet, due to their negligence, descend to unfold in the angelic hierarchy. The angels and demons thereafter guide the movements of all spirits, substances, and signs in the created world. The neutral spirits of human souls can choose to follow either the guidance of guardian angels or demons. And yet after the Incarnation, the angels are distinguished from the demons by their choice to follow Christ. Origen’s angelology has often been regarded as an early Christian alternative to Middle Platonic daemonologies. And after Karl Barth, his angelology has come to be dispensed from Christian theology. However, as Jean Daniélou has observed, Origen had previously departed from Platonic daemonology in affirming that angelic mediacy must pass away like the light of the stars before the brilliance of the Logos of Christ. He had, in this way, already assimilated the mediacy of the angels to the absolute mediation of Christ. And, in assimilating angelic to christic mediacy, Origen also attributes the reason with which the world is moved to the divine reason of the divine Word (Logos) of Christ in God. Origen’s angelology can thus be read both before and after Barth as a science of the angels. (shrink)

This article builds on C. S. Peirce’s suggestive blueprint for an inclusive outlook that grants reality to his three categories. Moving away from the usual focus on (contentious) cosmological forces, I use a modal principle to partition various ontological layers: regular sign-action (like coded language) subsumes actual sign-action (like here-and-now events) which in turn subsumes possible sign-action (like qualities related to whatever would be similar to them). Once we realize that the triadic sign’s components are each answerable to this asymmetric (...) subsumption, we obtain the means to track at which level of complexity semiosis finds itself, in a given case. Since the bulk of such a “trinitarian” metaphysics would be devoted to countenancing uninterpreted phenomena, I argue that current misgivings about sign-based ontologies are largely misplaced. (shrink)

The book aims to examine how a Trinitarian Theism can be formulated through the elaboration of a Relational Ontology and a Trinitarian Metaphysics, in the context of a hyperphatic epistemology. This metaphysics has been proposed by some supporters of the so-called Open Theism as a solution to the numerous dilemmas of Classical Theism. The hypothesis they support is that the Trinitarian nature of God, reflected in a world of multiplicity, relationality, substance and relations, demands that we (...) think of God as dynamic, internally multiple and relational. However, if the expression «God is love» – understood as the formula of the Trinity – is the key to a new theism, it leaves a problem open: how can it be translated philosophically? The research develops on two different levels: first, it assesses whether the expression should be translated into the Trinitarian paradigm, and the aporias it generates; secondly, it tries to assess whether this paradigm (eminently relational) has a correspondence in ontology: is there a satisfactory Relational Metaphysics already available? The suspicion is that such Trinitarian-Relational Ontology, invoked by many as a solution to the incongruities of classical theism, has yet to be formulated in a satisfactorily manner, despite the existence of various attempts to formulate Relational Ontologies. In order to provide an evaluation of all these attempts and to outline some possible new perspectives, the thesis consists of five chapters. It is the aim of the present dissertation to evaluate such attempts, and to outline some possible new solutions. In the chapters some points have been established: 1. there must be at least one irreducible real relation (non-reductionist realism); 2. the relation must be equally fundamental to the substance: this means that it is both external and internal; 3. this relation must be able to account for contingent causality; 4. holism is a plausible position; 5. the Trinity is a good theistic model of the divine, apophatic but rational. The last chapter then returns to ontological questions: several Relational Ontologies are examined – including ontic structural realism and process (or eventist) ontology – together with their applications in philosophy of religion (e.g.: the Relational God, Process Trinitarianism, the Entangled God). This assessment shows how all these ontologies postulate real transcendental relations (subsistent relations), inside the substances or inside the powers, inside the tropes or the structures, describing them as monads or processes (or actual occasions). These relations are the same we need to describe the Trinity. Therefore, they are either possible for both domains – ontology and theology – or they are both impossible. It has been opted for the second conclusion. But they are both impossible and inevitable: the fundamental entities of the world and their interactions (causation) must be described as real transcendental relations because each ontology transforms entities or relations into real transcendental relationships at some point. Thus, neither relationalism nor substantialism are convincing: from the fall of these two dogmas (or, rather, from the fall of their naive interpretations) we can realise that the fundamental reality is something that lies between processism (relationalism) and substantialism. It is impossible to completely substitute the notion of substance with the notion of event, process, structure or relation, both in speaking of God and in speaking about the entities of fundamental ontology. Neither monism nor pluralism can be affirmed in their pure forms. The hypothesis proposed, then, is that the notion of gunk-junk is the only one that can translate the relationality hitherto sought in an ontological model. The central part of the chapter describes the merits and defects of an eventist-infinitive ontology (EIO) based on the concept of gunk, and its potentiality to generate new theistic accounts. Through the notion of infinityings it seems to be possible to find some solutions for the questions left open by the causal relation, and therefore to defend at least the existence of one relation (external and internal). Each fundamental entity is described, in this ontology, through four transcendentals: ‘entity’, ‘relation’, ‘unity’ and ‘multiplicity’. The co-primarity between substance and relations (borrowed from the notion of relatio subsistens) differentiates EIO from the process philosophies precisely because it does not pretend to eliminate the substantial principle, or the category of substance, but wants to think of it with the transcendental of relationality. Of course, EIO poses a challenge to the role, the method and the explicative capacity of metaphysics, because what we can state of the fundamental reality is antinomic. EIO tries to assume the antinomy as a result, to make it the basis of a kind of apophatic ontology. If our best ontology is gunky, then it is possible to confirm what has been said in chap. 4: the ‘how’ of individual substances is unknown to us at least as much as the ‘how’ of God. Even in the world we have the mystery of a distinction that is not division. However, the convergence of these antinomies can find an ultimate explanation in a theistic metaphysics (EIM): God creates inside of Himself and his Trinitarian substance is “contracted” into the worldly entities. They are made contingent and ontologically different by this self-limitation, but it is still the infinity of God that makes space in Himself for something new, even though He is totally present in every entity. It is not absurd to think that the substances of the world keep track of the divine nature, even in His “contraction”. Among the characteristics of the divine nature that each created entity maintains we have the subsistent relationality, the pericoretic indwelling (the infinite gunk-junk), the fact of being always one-and-many. If EIO and EIM are accepted as a good compromise between relationalism and substantialism, even in their apophaticity, then, on this basis, a Trinitarian Philosophy is possible. The picture of reality that emerges represents the world as multiple, substantial, contingent and intrinsically relational, forcing us to postulate the transcendental of relationality and multiplicity. Such transcendental leads us to think of the world and God (and their relations) in a Trinitarian way – With the necessary acknowledgement that this is a reasonable but apophatic discourse. (shrink)

This paper assesses the viability of the model of ”collective action’ for the understanding of the doctrine of the inseparability of trinitarian operations, broadly conceived within a Social-Trinitarian framework. I argue that a ”loose’ understanding of this inseparability as ”unity of intention’ is insufficiently monotheistic and that it can be ”tightened’ by an understanding of the ontology of triune operations analogically modelled after collective actions of a ”constitutive’ kind. I also show that attention to the ”description relativity (...) of action ascriptions’ can potentially move us beyond the impasse of the doctrine of appropriation. Finally, I respond to potential objections. (shrink)

The theorizing about the doctrine of the Trinity by contemporary analytic philosophers of religion has recently been imbued with an air of enthusiastic excitement and self-confidence. My intuition is that there’s room for saying something more in support to the embarrassment and puzzlement traditionally related to the predication of God’s onefoldness and threefoldness. My purpose is to deliver a general argument for (weak) trinitarian skepticism. My view is that the argument provides substantive reasons in support to the common sense (...) intuition that either God’s onefoldness and threefoldness aren’t actually compatible or God’s onefoldness and threefoldness aren’t robustly construed. (shrink)

We begin with a puzzle about how to intelligibly combine the active and passive elements of perception. For counsel, we turn to Augustine’s account of perception in De Trinitate. Augustine’s trinitarian account of perception offers an attractive resolution of our puzzle. Augustine’s resolution of our puzzle, however, cannot be straightforwardly adopted. It must be adapted. We end with speculation about how this might be done.

Timothy Williamson has argued that in the debate on modal ontology, the familiar distinction between actualism and possibilism should be replaced by a distinction between positions he calls contingentism and necessitism. He has also argued in favor of necessitism, using results on quantified modal logic with plurally interpreted second-order quantifiers showing that necessitists can draw distinctions contingentists cannot draw. Some of these results are similar to well-known results on the relative expressivity of quantified modal logics with so-called inner and (...) outer quantifiers. The present paper deals with these issues in the context of quantified modal logics with generalized quantifiers. Its main aim is to establish two results for such a logic: Firstly, contingentists can draw the distinctions necessitists can draw if and only if the logic with inner quantifiers is at least as expressive as the logic with outer quantifiers, and necessitists can draw the distinctions contingentists can draw if and only if the logic with outer quantifiers is at least as expressive as the logic with inner quantifiers. Secondly, the former two items are the case if and only if all of the generalized quantifiers are first-order definable, and the latter two items are the case if and only if first-order logic with these generalized quantifiers relativizes. (shrink)

I argue that the self is simple metaphysically, whilst being complex psychologically and that the persona that links these moments might be dubbed ”creativity’ or ”imagination’. This theory is trinitarian because it ascribes to the self these three ”features’ or ”moments’ and they bear at least some analogy with the Persons of the Trinity, as understood within the neo- platonic, Augustinian tradition.

In this chapter, I examine Lewis's ideas about ontological innocence, ontological commitment and double-counting, in his discussion of composition as identity in Parts of Classes. I attempt to understand these primarily as epistemic or methodological claims: how far can we get down this route without adopting radical metaphysical theses about composition as identity?

From his earliest publications until his last, Francis Bacon displayed an intense interest in theo- logical and religious issues, and expressed this interest in both public and private. On the other hand, he has long been recognized for his proposals for a grand reform and reconstruction of natural philosophy, in which experience, observation, experiment, and technological implementation of abstract claims all took center stage. This practical bent has often neatly been encapsu- lated in the slogan derived from Bacon himself, ‘knowledge (...) is power.’ The many and interesting connections between these two sets of interests – the theological and the natural philosophical – have not gone unnoticed by scholars; however, one central component of Bacon’s pragmatic approach to natural philosophy that was deeply influenced by his theological concerns has remained unexplored. The equation between knowledge and power, so well known, in fact developed out of Bacon’s conception of the Christian Trinity, and out of the rela- tionship between the Trinity and humanity’s pursuit of knowledge about nature. It is the task of this essay to trace the development of this connection from the beginnings of Bacon’s literary career until its end. (shrink)

'Ontology and Metaontology: A Contemporary Guide' is a clear and accessible survey of ontology, focussing on the most recent trends in the discipline. -/- Divided into parts, the first half characterizes metaontology: the discourse on the methodology of ontological inquiry, covering the main concepts, tools, and methods of the discipline, exploring the notions of being and existence, ontological commitment, paraphrase strategies, fictionalist strategies, and other metaontological questions. The second half considers a series of case studies, introducing and familiarizing (...) the reader with concrete examples of the latest research in the field. The basic sub-fields of ontology are covered here via an accessible and captivating exposition: events, properties, universals, abstract objects, possible worlds, material beings, mereology, fictional objects. -/- The guide's modular structure allows for a flexible approach to the subject, making it suitable for both undergraduates and postgraduates looking to better understand and apply the exciting developments and debates taking place in ontology today. (shrink)

Epistemic reasons are mental states. They are not propositions or non-mental facts. The discussion proceeds as follows. Section 1 introduces the topic. Section 2 gives two concrete examples of how our topic directly affects the internalism/externalism debate in normative epistemology. Section 3 responds to an argument against the view that reasons are mental states. Section 4 presents two problems for the view that reasons are propositions. Section 5 presents two problems for the view that reasons are non-mental facts. Section 6 (...) argues that reasons are mental states. Section 7 responds to objections. (shrink)

The rapidly increasing wealth of genomic data has driven the development of tools to assist in the task of representing and processing information about genes, their products and their functions. One of the most important of these tools is the Gene Ontology (GO), which is being developed in tandem with work on a variety of bioinformatics databases. An examination of the structure of GO, however, reveals a number of problems, which we believe can be resolved by taking account of (...) certain organizing principles drawn from philosophical ontology. We shall explore the results of applying such principles to GO with a view to improving GO’s consistency and coherence and thus its future applicability in the automated processing of biological data. (shrink)

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)

Increasingly, in data-intensive areas of the life sciences, experimental results are being described in algorithmically useful ways with the help of ontologies. Such ontologies are authored and maintained by scientists to support the retrieval, integration and analysis of their data. The proposition to be defended here is that ontologies of this type – the Gene Ontology (GO) being the most conspicuous example – are a part of science. Initial evidence for the truth of this proposition (which some will find (...) self-evident) is the increasing recognition of the importance of empirically-based methods of evaluation to the ontology development work being undertaken in support of scientific research. The ontologies created by scientists must, of course, be associated with implementations satisfying the requirements of software engineering. But these ontologies are not themselves engineering artifacts, and to conceive them as such brings grievous consequences. Rather, we shall argue, ontologies such as the GO are comparable to scientific theories, to scientific databases, or to scientific journal publications. Such a view implies a radically new conception of what is involved in the authoring, maintenance and application of ontologies in scientific contexts, and therewith also a radically new approach to the evaluation of ontologies and to the training of ontologists. (shrink)

World food production is facing exorbitant challenges like climate change, use of resources, population growth, and dietary changes. These, in turn, raise major ethical and political questions, such as how to uphold the right to adequate nutrition, or the right to enact a gastronomic culture and to preserve the conditions to do so. Proposals for utopic solutions vary from vertical farming and lab meat to diets filled with the most fanciful insects and seaweeds. Common to all proposals is a polarized (...) understanding of food and diets, famously captured by Warren Belasco in the contraposition between technological fixes and anthropological fixes. According to the first, technology will deliver clean, just, pleasurable, affordable food; future generations will not need to adjust much of their dietary cultures. According to the second, future generations should dramatically change their dietary habits (what they eat and how they eat it) to achieve a sustainable diet. The two fixes found remarkably distinct perspectives over dietary politics and the ethics of food production and consumption. In this paper we argue that such polarized thinking rests on a misrepresentation of the ontological status of food, which in turn affects the underlying ethical and political issues. Food is a socially constructed object that draws in specific ways on habits, norms, traditions, geographical, and climatic conditions. Although this thesis seems somewhat obvious, its consequences on the ethical and political perspectives on the future of food have not been derived properly. After introducing the issue at stake (¤1), we point out the polarities that characterize food utopias (¤2) and their ontological faults (¤3). We hence suggest that a socio-ontological analysis of food can better deliver the principles for a foundation of food utopias (¤4). (shrink)

The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies that provide a representation of biomedical knowledge from the Open Biological and Biomedical Ontologies (OBO) project and adds the ability to describe how this knowledge was derived. We here describe the state of OBI and several applications that are using it, such as adding semantic (...) expressivity to existing databases, building data entry forms, and enabling interoperability between knowledge resources. OBI covers all phases of the investigation process, such as planning, execution and reporting. It represents information and material entities that participate in these processes, as well as roles and functions. Prior to OBI, it was not possible to use a single internally consistent resource that could be applied to multiple types of experiments for these applications. OBI has made this possible by creating terms for entities involved in biological and medical investigations and by importing parts of other biomedical ontologies such as GO, Chemical Entities of Biological Interest (ChEBI) and Phenotype Attribute and Trait Ontology (PATO) without altering their meaning. OBI is being used in a wide range of projects covering genomics, multi-omics, immunology, and catalogs of services. OBI has also spawned other ontologies (Information Artifact Ontology) and methods for importing parts of ontologies (Minimum information to reference an external ontology term (MIREOT)). The OBI project is an open cross-disciplinary collaborative effort, encompassing multiple research communities from around the globe. To date, OBI has created 2366 classes and 40 relations along with textual and formal definitions. The OBI Consortium maintains a web resource providing details on the people, policies, and issues being addressed in association with OBI. (shrink)

I develop a view of the common factor between subjectively indistinguishable perceptions and hallucinations that avoids analyzing experiences as involving awareness relations to abstract entities, sense-data, or any other peculiar entities. The main thesis is that hallucinating subjects employ concepts (or analogous nonconceptual structures), namely the very same concepts that in a subjectively indistinguishable perception are employed as a consequence of being related to external, mind-independent objects or property-instances. These concepts and nonconceptual structures are identified with modes of presentation types. (...) Since a hallucinating subject is not related to any such objects or property-instances, the concepts she employs remain empty. I argue that the phenomenology of hallucinations and perceptions can be identified with employing concepts and analogous nonconceptual structures. By doing so, I defend an ontologically minimalist view of the phenomenology of experience that (1) vindicates Aristotelianism about types and (2) amounts to a naturalized view of the phenomenology of experience. (shrink)

Software application ontologies have the potential to become the keystone in state-of-the-art information management techniques. It is expected that these ontologies will support the sort of reasoning power required to navigate large and complex terminologies correctly and efficiently. Yet, there is one problem in particular that continues to stand in our way. As these terminological structures increase in size and complexity, and the drive to integrate them inevitably swells, it is clear that the level of consistency required for such navigation (...) will become correspondingly difficult to maintain. While descriptive semantic representations are certainly a necessary component to any adequate ontology-based system, so long as ontology engineers rely solely on semantic information, without a sound ontological theory informing their modeling decisions, this goal will surely remain out of reach. In this paper we describe how Language and Computing nv (L&C), along with The Institute for Formal Ontology and Medical Information Sciences (IFOMIS), are working towards developing and implementing just such a theory, combining the open software architecture of L&C’s LinkSuiteTM with the philosophical rigor of IFOMIS’s Basic Formal Ontology. In this way we aim to move beyond the more or less simple controlled vocabularies that have dominated the industry to date. (shrink)

Ontological pluralism is the view that there are different ways of being. Historically, ways of being are aligned with the ontological categories. This paper is about to investigate why there is such a connection, and how it should be understood. Ontological pluralism suffers from an objection, according to which ontological pluralism collapses into ontological monism, i.e., there is only one way to be. Admitting to ontological categories can save ontological pluralism from this objection if ways of being ground ontological categories. (...) -/- . (shrink)

This paper aims to show that Godel's ontological argument can be parodied in much the same kind of way in which Gaunilo parodied Anselm's Proslogion argument. The parody in this paper fails; there is a patch provided in "Reply to Gettings" (Analysis 60, 4, 2000, 363-7).

The aim of this paper is to summarize a particular approach of doing metaphysics through physics - the primitive ontology approach. The idea is that any fundamental physical theory has a well-defined architecture, to the foundation of which there is the primitive ontology, which represents matter. According to the framework provided by this approach when applied to quantum mechanics, the wave function is not suitable to represent matter. Rather, the wave function has a nomological character, given that its (...) role in the theory is to implement the law of evolution for the primitive ontology. (shrink)

Because climate change can be seen as the blind spot of contemporary philosophy of technology, while the destructive side effects of technological progress are no longer deniable, this article reflects on the role of technologies in the constitution of the (post)Anthropocene world. Our first hypothesis is that humanity is not the primary agent involved in world-production, but concrete technologies. Our second hypothesis is that technological inventions at an ontic level have an ontological impact and constitutes world. As we object to (...) classical philosophers of technology like Ihde and Heidegger, we will sketch the progressive contribution of our conceptuality to understand the role of technology in the Anthropocene world. Our third hypothesis is that technology has emancipatory potential and in this respect, can inaugurate a post-Anthropocene World. We consider these three hypotheses to develop a philosophical account of the ontology of technology beyond an abstract and deterministic understanding. This concept enables us to philosophically reflect on the role of technology in the Anthropocene World in general, and its contribution to the transition to the post-Anthropocene World in particular. (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 defends a view of the Gene Ontology (GO) and of Basic Formal Ontology (BFO) as examples of what the manufacturing industry calls product-service systems. This means that they are products (the ontologies) bundled with a range of ontology services such as updates, training, help desk, and permanent identifiers. The paper argues that GO and BFO are contrasted in this respect with DOLCE, which approximates more closely to a scientific theory or a scientific publication. The paper (...) provides a detailed overview of ontology services and concludes with a discussion of some implications of the product-service system approach for the understanding of the nature of applied ontology. Ontology developer communities are compared in this respect with developers of scientific theories and of standards (such as W3C). For each of these we can ask: what kinds of products do they develop and what kinds of services do they provide for the users of these products? (shrink)

In recent years, there has been an increasing interest in thedevelopment of ontologically well-founded conceptual models for Information Systems in areas such as Service Management, Accounting Information Systems and Financial Reporting. Economic exchanges are central phenomena in these areas. For this reason, they occupy a prominent position in modelling frameworks such as the REA (Resource-EventAction) ISO Standard as well as the FIBO (Financial Industry BusinessOntology). In this paper, we begin a well-founded ontological analysisof economic exchanges inspired by a recent ontological (...) view on the nature of economic transactions. According to this view, what counts asan economic transaction is based on an agreement on the actions thatthe agents are committed to perform. The agreement is in turn based on convergent preferences about the course of action to bring about. This view enables a unified treatment of economic exchanges, regardless the object of the transaction, and complies with the view that all economictransactions are about services. In this paper, we start developing our analysis in the framework of the Unified Foundational Ontology (UFO). (shrink)

We propose an ontological theory that is powerful enough to describe both complex spatio-temporal processes (occurrents) and the enduring entities (continuants) that participate in such processes. For this purpose we distinguish between meta-ontology and token ontologies. Token ontologies fall into two major categories: ontologies of type SPAN and ontologies of type SNAP. These represent two complementary perspectives on reality and result in distinct though compatible systems of categories. The meta-ontological level then describes the relationships between the different token ontologies. (...) In a SNAP (snapshot) ontology we have enduring entities such as substances, qualities, roles, functions as these exist to be inventoried at a given moment of time. In a SPAN ontology we have perduring entities such as processes and their parts and aggregates. We argue that both kinds of ontological theory are required, together with the metaontology which joins them together, in order to give a non-reductionistic account of both static and dynamic aspects of the geospatial world. (shrink)

The desideratum of semantic interoperability has been intensively discussed in medical informatics circles in recent years. Originally, experts assumed that this issue could be sufficiently addressed by insisting simply on the application of shared clinical terminologies or clinical information models. However, the use of the term ‘ontology’ has been steadily increasing more recently. We discuss criteria for distinguishing clinical ontologies from clinical terminologies and information models. Then, we briefly present the role clinical ontologies play in two multicentric research projects. (...) Finally, we discuss the interactions between these different kinds of knowledge representation artifacts and the stakeholders involved in developing interoperational real-world clinical applications. We provide ontology engineering examples from two EU-funded projects. (shrink)

Traditionally, social entities (i.e., social properties, facts, kinds, groups, institutions, and structures) have not fallen within the purview of mainstream metaphysics. In this chapter, we consider whether the exclusion of social entities from mainstream metaphysics is philosophically warranted or if it instead rests on historical accident or bias. We examine three ways one might attempt to justify excluding social metaphysics from the domain of metaphysical inquiry and argue that each fails. Thus, we conclude that social entities are not justifiably excluded (...) from metaphysical inquiry. Finally, we ask how focusing on social entities could change the character of metaphysical inquiry. We suggest that starting from examples of social entities might lead metaphysicians to rethink the assumption that describing reality in terms of intrinsic, independent, and individualistic features is preferable to describing it in terms of relational, dependent, and non-individualistic features. (shrink)

The gulf between philosophical and formal ontology can and should be bridged. In this Editorial, I elaborate briefly on this subject.

Ontology has been proposed as a solution to the 'Tower of Babel' problem that threatens the semantic interoperability of information systems constructed independently for the same domain. In information systems research and applications, ontologies are often implemented by formalizing the meanings of words from natural languages. However, words in different natural languages sometimes subdivide the same domain of reality in terms of different conceptual categories. If the words and their associated concepts in two natural languages, or even in two (...) terminological traditions within the same language, do not have common referents in the real world, an ontology based on word meanings will inherit the 'Tower of Babel' problem from the languages involved, rather than solve it. In this paper we present evidence from a preliminary comparison of landscape terms in English with those in the Yindjibarndi language of northwestern Australia demonstrating that this problem is not just hypothetical. Some possible solutions are suggested. (shrink)

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 part we also consider (...) the idea of non-standard geographies, which may be associated with geography under a classical conception in the same sense in which non-standard logics are associated with classical logic. (shrink)

Enterprise Risk Management and security have become a fundamental part of Enterprise Architecture, so several frameworks and modeling languages have been designed to support the activities associated with these areas. Archi- Mate’s Risk and Security Overlay is one of such proposals, endorsed by The Open Group. We investigate the capabilities of the proposed security-related con- structs in ArchiMate with regard to the necessities of enterprise security modeling. Our analysis relies on a well-founded reference ontology of security to uncover ambiguity, (...) missing modeling elements, and other deficiencies of the security mod- eling capabilities in ArchiMate. Based on this ontologically-founded analysis, we propose a redesign of security aspects of ArchiMate to overcome its original limitations. (shrink)

Ontological pluralism is the view that there are different fundamental ways of being. Trenton Merricks has recently raised three objections to combining pluralism with a generic way of being enjoyed by absolutely everything there is: first, that the resulting view contradicts the pluralist’s core intuition; second, that it is especially vulnerable to the charge—due to Peter van Inwagen—that it posits a difference in being where there is simply a difference in kind; and, third, that it is in tension with various (...) historically influential motivations for pluralism. I reply to each of these objections in turn. My replies will help to bring out the true nature of the pluralist’s basic commitments. (shrink)

The research presented in this article is motivated by the increasing importance of complex human relations in linked data, either extracted from social networks, or found in existing databases. The FOAF vocabulary, targeted in our research, plays a central role in those data, and is a model for lightweight ontologies largely used in linked data, such as the DBpedia ontology and schema-org. We provide an overview of FOAF and other approaches for describing human relations, followed by a detailed analysis (...) and critique of the FOAF Relationship Vocabulary, the most important FOAF extension. We propose an explicit formal axiomatization of this vocabulary, and an ontological analysis concerning the properties used to describe human relationships. We analyze the distribution of human relations based on their epistemological status, and define an ontoepistemic meta-property as characteristic of some of these predicates. Our analysis is generalizable to semantic modeling of social networks. Additionally, the modeling patterns used in other relevant linked data vocabularies are analyzed for comparison. (shrink)

Though the realm of biology has long been under the philosophical rule of the mechanistic magisterium, recent years have seen a surprisingly steady rise in the usurping prowess of process ontology. According to its proponents, theoretical advances in the contemporary science of evo-devo have afforded that ontology a particularly powerful claim to the throne: in that increasingly empirically confirmed discipline, emergently autonomous, higher-order entities are the reigning explanantia. If we are to accept the election of evo-devo as our (...) best conceptualisation of the biological realm with metaphysical rigour, must we depose our mechanistic ontology for failing to properly “carve at the joints” of organisms? In this paper, I challenge the legitimacy of that claim: not only can the theoretical benefits offered by a process ontology be had without it, they cannot be sufficiently grounded without the metaphysical underpinning of the very mechanisms which processes purport to replace. The biological realm, I argue, remains one best understood as under the governance of mechanistic principles. (shrink)

Easy Ontology (EO), defended in several recent works by Amie Thomasson, and based on Carnap’s famous deflationism about metaphysics, is the view that many ontological questions, like ‘Are there numbers?’, are at bottom easy, at least when taken in their “internal” sense. Both Carnap and Thomasson take for granted that serious metaphysicians therefore cannot plausibly be interpreted as asking internal questions. Thus, they think they are committed to finding some alternative, special interpretation of metaphysicians’ utterances. I argue that none (...) of the alternative interpretations proposed in the literature are viable. More importantly, I argue that Carnap and Thomasson are wrong about this commitment. EO should instead be coupled with the view that metaphysicians ask internal questions, yet have the false belief that they can be answered only through metaphysical speculation. This is a significant modification of EO, in which the notion of an “external question” plays no role, and which results in a simpler and more plausible theory. (shrink)

Does Anne Conway (1631–79) hold that the created world consists of a single underlying substance? Some have argued that she does; others have argued that she is a priority monist and so holds that there are many created substances, but the whole created world is ontologically prior to each particular creature. Against both of these proposals, this article makes the case for a substance pluralist interpretation of Conway: individual creatures are distinct substances, and the whole created world is not ontologically (...) prior to the individual creatures that compose it. The basic argument for such a view draws on Conway's claims about the freedom and moral responsibility of individual creatures. The pluralist reading is straightforwardly compatible with these claims, while the monistic readings are not. (shrink)

The aim of natural language ontology is to uncover the ontological categories and structures that are implicit in the use of natural language, that is, that a speaker accepts when using a language. This article aims to clarify what exactly the subject matter of natural language ontology is, what sorts of linguistic data it should take into account, how natural language ontology relates to other branches of metaphysics, in what ways natural language ontology is important, and (...) what may be distinctive of the ontological categories and structures reflected in natural language. (shrink)

In a number of recent publications Thomasson has defended a deflationary approach to ontological disputes, according to which ontological disputes are relatively easy to settle, by either conceptual analysis, or conceptual analysis in conjunction with empirical investigation. Thomasson’s “easy” approach to ontology is intended to derail many prominent ontological disputes. In this paper I present an objection to Thomasson’s approach to ontology. Thomasson’s approach to existence assertions means that she is committed to the view that application conditions associated (...) with any term “K” with non-trivial application conditions must refer to the existence of things other than Ks. Given other components of her meta-ontological scheme, this leads to either an infinite regress or circularity of application conditions, both of which seem objectionable. Accordingly, some part of Thomasson’s meta-ontological scheme should be modified or abandoned. (shrink)

The goal of the Department of Defense Net-Centric Data Strategy is to improve data sharing throughout the DoD. Data sharing is a critical element of interoperability in the emerging system-of-systems. Achieving interoperability requires the elimination of two types of data heterogeneity: differences of syntax and differences of semantics. This paper builds a path toward semantic uniformity through application of a disciplined approach to ontology. An ontology is a consensus framework representing the types of entities within a given domain (...) and the relations between them. The construction of an ontology begins when a Community of Interest (COI) identifies its authoritative data sources (ADS), which are usually manifest in relevant doctrinal publications, glossaries, data dictionaries, and logical data models. The identified terms are then defined in relation to a common logical framework that has been designed to ensure interoperability with other ontologies created on the basis of the same strategy. As will be described, the Command and Control (C2) Ontology will include representations of a substantial number of entities within the Command and Control (C2) domain. If domain ontologies (e.g. Strike and Counterinsurgency) semantically align with the C2 Ontology, then a substantial barrier to systems interoperability is thereby crossed. (shrink)

Medical terminology collects and organizes the many different kinds of terms employed in the biomedical domain both by practitioners and also in the course of biomedical research. In addition to serving as labels for biomedical classes, these names reflect the organizational principles of biomedical vocabularies and ontologies. Some names represent invariant features (classes, universals) of biomedical reality (i.e., they are a matter for ontology). Other names, however, convey also how this reality is perceived, measured, and understood by health professionals (...) (i.e., they belong to the domain of epistemology). We analyze terms from several biomedical vocabularies in order to throw light on the interactions between ontological and epistemological components of these terminologies. We identify four cases: 1) terms containing classification criteria, 2) terms reflecting detectability, modality, uncertainty, and vagueness, 3) terms created in order to obtain a complete partition of a given domain, and 4) terms reflecting mere fiat boundaries. We show that epistemology-loaded terms are pervasive in biomedical vocabularies, that the “classes” they name often do not comply with sound classification principles, and that they are therefore likely to cause problems in the evolution and alignment of terminologies and associated ontologies. (shrink)

The Greek model of the Trinity, based on the Theological Orations of Gregory of Nazianzus, treats the Trinitarian relations as connections between the Father and the two other persons: the Son and the Holy Spirit. The two relations have to be heteronymous, and have to be interpreted from the extreme realistic position. The Latin Trinitarian model, based on Boethius’ De Trinitate, treats relations as three subsistent persons. The relations have to be unidirectional: from the Father to the Son, (...) and from both of them to the Holy Spirit. Both models are adequate and effective, but incompatible. One of the consequences of this incompatibility is the problem of filioque: the introduction of an additional relation of procession into the Greek model as well as the exclusion of this relation from the Latin model result in the inadequacy of the models. From the point of view of the complementability of a model, the Greek model allows introduction of new elements, while the Latin model does not. The soteriological consequences are such that the Greek model welcomes a human person to establish a unique relation with the person of the Father, which leads to the theosis of a creature. The Latin model requires the saving relation to be established with the whole Trinity, and theosis is not supported. (shrink)

In many different ontological debates, anti-arbitrariness considerations push one towards two opposing extremes. For example, in debates about mereology, one may be pushed towards a maximal ontology (mereological universalism) or a minimal ontology (mereological nihilism), because any intermediate view seems objectionably arbitrary. However, it is usually thought that anti-arbitrariness considerations on their own cannot decide between these maximal or minimal views. I will argue that this is a mistake. Anti-arbitrariness arguments may be used to motivate a certain popular (...) thesis in the philosophy of mathematics that rules out the maximalist view in many different ontological debates. (shrink)

Ontology as a branch of philosophy is the science of what is, of the kinds and structures of objects, properties, events, processes and relations in every area of reality. ‘Ontology’ in this sense is often used by philosophers as a synonym of ‘metaphysics’ (a label meaning literally: ‘what comes after the Physics’), a term used by early students of Aristotle to refer to what Aristotle himself called ‘first philosophy’. But in recent years, in a development hardly noticed by (...) philosophers, the term ‘ontology’ has gained currency in the field of computer and information science, and in information-driven research in bioinformatics and related areas. We examine these new developments in applied ontology, and show what lessons they might have for both philosophers and information scientists. (shrink)