The significance of hair is deeply rooted in African ontology. It depicts leadership status and when shaved off completely, may sometimes signify mourning or lack of dignity. In Benin-city of Edo state in Nigeria, Chiefs who are mostly men are identified by their unique hair-styles. It shows their position of leadership in the society and when a king dies, all the men in the kingdom are expected to shave off their hair as a sign of respect for the departed (...) king. In the culture of the Yoruba people of Nigeria, hair is highly celebrated by the women as it is seen as a crown of glory upon their heads. With advancement in globalisation and cross-cultural relationships, the culture of hair and its ontological significances are gradually being eroded as expressed in Chimamanda Adichie‟s „Americanah‟. For this reason, the hair, being a very important symbol of cultural identity has become a key role in understanding the issues with identity crises in Africa. The paper analyses the ontological significances of hair in Africa, evaluates the issues involved in the misrepresentation of African hair as presented in some African literature as well as interrogates the issues of identity crises occasioned by African hair. (shrink)

What are words? What makes two token words tokens of the same word-type? Are words abstract entities, or are they (merely) collections of tokens? The ontology of words tries to provide answers to these, and related questions. This article provides an overview of some of the most prominent views proposed in the literature, with a particular focus on the debate between type-realist, nominalist, and eliminativist ontologies of words.

We describe an ontology of philosophy that is designed to aid navigation through philosophical literature, including literature in the form of encyclopedia articles and textbooks and in both printed and digital forms. The ontology is designed also to serve integration and structuring of data pertaining to the philosophical literature, and in the long term also to support reasoning about the provenance and contents of such literature, by providing a representation of the philosophical domain that (...) is oriented around what philosophical literature is about. (shrink)

Utilizing Einstein’s comparison of General Relativity and Descartes’ physics, this investigation explores the alleged conventionalism that pervades the ontology of substantival and relationist conceptions of spacetime. Although previously discussed, namely by Rynasiewicz and Hoefer, it will be argued that the close similarities between General Relativity and Cartesian physics have not been adequately treated in the literature—and that the disclosure of these similarities bolsters the case for a conventionalist interpretation of spacetime ontology.

What are the identity and persistence conditions of videogames? This paper surveys the contemporary philosophical literature on this topic. Specifically, I discuss various views which attempt to ground the identity of videogame works in their rules, in their algorithmic structure, in their source code, or in contextual parameters surrounding gameplay. While these proposals all have merits of their own, I argue that none of them are satisfactory. My conclusion is therefore negative: we still lack an adequate theoretical model to (...) account for the identity and persistence conditions of videogames. (shrink)

In Risk Management, security issues arise from complex relations among objects and agents, their capabilities and vulnerabilities, the events they are involved in, and the value and risk they ensue to the stakeholders at hand. Further, there are patterns involving these relations that crosscut many domains, ranging from information security to public safety. Understanding and forming a shared conceptualization and vocabulary about these notions and their relations is fundamental for modeling the corresponding scenarios, so that proper security countermeasures can be (...) devised. Ontologies are instruments developed to address these conceptual clarification and terminological systematization issues. Over the years, several ontologies have been proposed in Risk Management and Security Engineering. However, as shown in recent literature, they fall short in many respects, including generality and expressivity - the latter impacting on their interoperability with related models. We propose a Reference Ontology for Security Engineering (ROSE) from a Risk Treatment perspective. Our proposal leverages on two existing Reference Ontologies: the Common Ontology of Value and Risk and a Reference Ontology of Prevention, both of which are grounded on the Unified Foundational Ontology (UFO). ROSE is employed for modeling and analysing some cases, in particular providing clarification to the semantically overloaded notion of Security Mechanism. (shrink)

There is growing debate about what is the correct methodology for research in the ontology of artworks. In the first part of this essay, I introduce my view: I argue that semantic descriptivism is a semantic approach that has an impact on meta-ontological views and can be linked with a hermeneutic fictionalist proposal on the meta-ontology of artworks such as works of music. In the second part, I offer a synthetic presentation of the four main positive meta-ontological views (...) that have been defended in philosophical literature about artworks and of some criticisms that can be lodged against them: Amie Thomasson’s global descriptivism, Andrew Kania’s local descriptivism, Julian Dodd’s folk-theoretic modesty, and David Davies’ rational accountability view. In the conclusion, I show the advantages of my view. (shrink)

Statistics play a critical role in biological and clinical research. However, most reports of scientific results in the published literature make it difficult for the reader to reproduce the statistical analyses performed in achieving those results because they provide inadequate documentation of the statistical tests and algorithms applied. The Ontology of Biological and Clinical Statistics (OBCS) is put forward here as a step towards solving this problem. Terms in OBCS, including ‘data collection’, ‘data transformation in statistics’, ‘data visualization’, (...) ‘statistical data analysis’, and ‘drawing a conclusion based on data’, cover the major types of statistical processes used in basic biological research and clinical outcome studies. OBCS is aligned with the Basic Formal Ontology (BFO) and extends the Ontology of Biomedical Investigations (OBI), an OBO (Open Biological and Biomedical Ontologies) Foundry ontology supported by over 20 research communities. We discuss two examples illustrating how the ontology is being applied. In the first (biological) use case, we describe how OBCS was applied to represent the high throughput microarray data analysis of immunological transcriptional profiles in human subjects vaccinated with an influenza vaccine. In the second (clinical outcomes) use case, we applied OBCS to represent the processing of electronic health care data to determine the associations between hospital staffing levels and patient mortality. Our case studies were designed to show how OBCS can be used for the consistent representation of statistical analysis pipelines under two different research paradigms. By representing statistics-related terms and their relations in a rigorous fashion, OBCS facilitates standard data analysis and integration, and supports reproducible biological and clinical research. (shrink)

Because the techno-economic paradigm of contemporary conceptualizations of innovation is often taken for granted in the literature, this chapter opens up this self-evident notion. First, the chapter consults the work of Joseph Schumpeter, who can be seen as the founding father of the current conceptualization of innovation as technological and commercial. Second, we open up the concept by reflecting on two aspects of Schumpeter’s conceptualization of innovation, namely its destructive and its constructive aspect, based on findings in the history (...) of innovation. Finally, we synthesize our findings and propose an ontic-ontological conceptualization of innovation as ontogenetic process and outcome with six dimensions—newness, political dimension, economic dimension, temporal dimension, human dimension and risk—that moves beyond its technological and commercial orientation. (shrink)

The importance of John Locke's discussion of persons is undeniable. Locke never explicitly tells us whether he thinks persons are substances or modes, however. We are thus left in the dark about a fundamental aspect of Locke's view. Many commentators have recently claimed that Lockean persons are modes. In this paper I swim against the current tide in the secondary literature and argue that Lockean persons are substances. Specifically I argue that what Locke says about substance, power, and agency (...) commits him to the claim that persons are substances. I consider the passages mode interpreters cite and show why these passages do not imply that Lockean persons are modes. I also respond to two objections anyone who thinks Lockean persons are substances must address. I show that a substance reading of Locke on persons can be sympathetic and viable. I contend that with a clearer understanding of the ontological status of Lockean persons we can gain a firmer grasp of what Locke's picture of persons looks like. Finally, once we are armed with a better understanding of Locke on substance, mode, and personhood, we can pave the way toward a more nuanced description of the early modern debate over personal identity. (shrink)

Richard Rorty’s conception of literature has been criticised more than acclaimed. While Rorty certainly has impacted literary studies, a comprehensive account of his understanding of literature is still lacking. Moreover, while literature is seen as significant to his later work, the philosophical role this plays in Rortyan thought is underexamined and underappreciated. This paper aims to provide an account of the role of literature and the “literary” in Rorty’s philosophy and the functions he assigns to (...) class='Hi'>literature and poetry – in a broad and narrow sense – in democratic cultures. Beginning with an account of Rorty’s conceptions of metaphor and “unfamiliar” language, it draws on this to explain Rorty’s parallel view of literature in the “narrower sense” as playing the same role in culture as metaphors do in language. “Stimulating” literature unsettles settled selves and beliefs and expands human imagination. Using Rorty’s readings of Lolita and 1984 as examples, it shows that to him, literature not only plays a part in increasing empathy and solidarity but has a distinct therapeutic epistemological task: it helps individuals and societies adopt a more pluralist, ironist, post-metaphysical outlook. Both are important democratic functions. For these reasons, Rorty recommends that we work to realise a “literary” culture that rejects any ontologically inflected distinctions between kinds of texts, where philosophy becomes comparative “literary” criticism, and we see literature in the “narrower sense” as equally necessary material for making selves, communities and just institutions as any philosophical or political treatise. (shrink)

The article discusses the problem of whether the self, or the subject, is real. There are several realist and anti-realist solutions to this problem. The author interprets all possible positions concerning this issue as conceptions of a certain relationship between the phenomenal self and the ontological self. In line with what is called phenomenal, or experiential minimalism, the author concludes that the experiential dimension of the self is sufficient for it to be real without qualification. Providing an argument against anti-realism, (...) the author differentiates between strong and reductive realism and maintain that selves criticized by anti-realists like Metzinger are things of strong realism, while in fact selves might turn out to be the things of reductive realism. The author suggests a solution to another problem of the ontology of the self, namely the problem of characterization. By endorsing minimalism, the self is characterized as the experiential faculty. According to the suggested version of minimalism, having experience is a necessary and sufficient condition to be a self or a subject. All other properties ascribed to subjects in philosophical literature are contingent. Properties like these are of course attributes of subjects, but they are neither necessary nor sufficient for subjectivity. A subject who loses these properties does not cease to be a subject. On the contrary, a thing which has lost its experiential ability ceases to be a subject. In addition, there are non-human subjects who may lack all subjectivity-related features, except for the experiential faculty, and still be considered subjects. Phenomenal minimalism is a solution to the problem of the reality of selves. Subjects, or selves, are real as things with the experiential faculty. Finally, the author rejects pluralism and conventionalism. Instead, essentialist realism is endorsed. (shrink)

In Examination of McTaggart's Philosophy, C.D. Broad advanced a distinctive ontology of things and processes. He argues that neither things nor processes are reduced to each other but instead are reduced to some further kind of entity: “absolute process.” This paper will present Broad's theory of absolute processes and argue that they are best understood as tropes by developing a version of Donald C. Williams's trope ontology. This process ontology of tropes is then defended against objections in (...) the contemporary metaphysics literature. (shrink)

An account of Roman Ingarden's ontology of literature.

Following Kelsen’s influential theory of law, the concept of validity has been used in the literature to refer to different properties of law (such as existence, membership, bindingness, and more), and so it is inherently ambiguous. More importantly, Kelsen’s equivalence between the existence and the validity of law prevents us from accounting satisfactorily for relevant aspects of our current legal practices, such as the phenomenon of “unlawful law.” This chapter addresses this ambiguity to argue that the most important function (...) of the concept of validity is constituting the complex ontological paradigm of modern law as an institutional-normative practice. In this sense, validity is an artificial ontological status that supervenes on that of the existence of legal norms, thus allowing law to regulate its own creation and creating the logical space for the occurrence of “unlawful law.” This function, I argue in the last part, is crucial to understanding the relationship between the ontological and epistemic dimensions of the objectivity of law. Given the necessary practice-independence of legal norms it is the epistemic accessibility of their creation that enables the law to fulfill its general action-guiding (and thus coordinating) function. (shrink)

In this article the treatment of animals by the early Christian and Arabic philosophy has been developed, focusing mainly on the work of Isidore of Seville and Al-Farabi. The contribution of this study is to highlight the insufficiently considered aspects of the ontology of animals and of their endorsement as moral "subjects" in both Latin and Arabic literature up to our days.

Though commentators have paid little thematic attention to Heidegger’s 1928 treatise “On the Essence of Ground” (OEG), recently available subsequent writings suggest that Heidegger himself saw OEG as a pivotal step on the way to “overcoming” his analysis of fundamental ontological transcendence. Among these writings is a set of rarely discussed lettered notes originally scribbled into his personal copy of OEG in which Heidegger offers a point-for-point deconstruction of the treatise’s fundamental ontological interpretation of transcendence. I argue that examining the (...) interplay between these two tiers of analysis may illuminate the murky trail that cuts between the beaten track of Being and Time and the increasingly well-trodden paths of Contributions to Philosophy and other later writings. Part one motivates the reading I propose by situating OEG in the broader contexts of its reception in the secondary literature, its engagement by Heidegger himself in subsequent writings, and my own interpretation—in view of Heidegger’s remarks—of its utility for illuminating the catalyst’s role played by the transcendence problem in the development of his overall project. Against this backdrop, part two advances a selective reading of the most important developments in OEG’s main text and lettered notes, elucidating in the process their hermeneutic significance for returning to and “turning” from the progressive elaboration of transcendence that both initiates and eventually exhausts Heidegger’s fundamental ontological inquiries. The picture that emerges, I conclude, is that OEG is hermeneutically a significantly more important work (for Heidegger certainly, but potentially also for his interpreters) than its marginal status in the secondary literature might lead one to believe. (shrink)

It is widely recognized that accurately identifying and classifying competitors is a challenge for many companies and entrepreneurs. Nonetheless, it is a paramount activity which provide valuable insights that affect a wide range of strategic decisions. One of the main challenges in competitor identification lies in the complex nature of the competitive relationships that arise in business envi- ronments. These have been extensively investigate over the years, which lead to a plethora of competition theories and frameworks. Still, the concept of (...) competition remains conceptually complex, as none of these approaches properly formalized their assumptions. In this paper, we address this issue by means of an ontological analysis on the notion of competition in general, and of business competition, in particular, leveraging theories from various fields, including Marketing, Strategic Management, Ecology, Psychology and Cognitive Sciences. Our analysis, the first of its kind in the literature, is grounded on the Unified Foundational Ontology (UFO) and allows us to formally characterize why competition arises, as well as to distinguish between three types of business competitive relationships, namely market-level, firm-level and potential competition. (shrink)

A ‘duality’ is a formal mapping between the spaces of solutions of two empirically equivalent theories. In recent times, dualities have been found to be pervasive in string theory and quantum field theory. Naïvely interpreted, duality-related theories appear to make very different ontological claims about the world—differing in e.g. space-time structure, fundamental ontology, and mereological structure. In light of this, duality-related theories raise questions familiar from discussions of underdetermination in the philosophy of science: in the presence of dual theories, (...) what is one to say about the ontology of the world? In this paper, we undertake a comprehensive and non-technical survey of the landscape of possible ontological interpretations of duality-related theories. We provide a significantly enriched and clarified taxonomy of options—several of which are novel to the literature. (shrink)

The book is a collection of papers and aims to unify the questions of syntax and semantics of language, which are included in logic, philosophy and ontology of language. The leading motif of the presented selection of works is the differentiation between linguistic tokens (material, concrete objects) and linguistic types (ideal, abstract objects) following two philosophical trends: nominalism (concretism) and Platonizing version of realism. The opening article under the title “The Dual Ontological Nature of Language Signs and the Problem (...) of Their Mutual Relations” provides a broad introduction into the problem area connected with this differentiation, while the logic-formal characteristics of the distinction are framed in the work entitled “On the Type-Token Relationships” (Chapter 1). The basic part of the book deals with issues relating to syntax (Chapters 2-4) and semantics of language (Chapters 5-6), as well as pertaining to syntactic-semantic pragmatic questions (Chapters 7-13). Throughout the book, language, categorial language, is characterized syntactically as generated by classical categorial grammar (Chapter 2) and formalized on two opposing levels: as language of expression-tokens (level of tokens) and language of expression-types (level of types). The author’s considerations contained in Chapters 2 and 4 lead to the important philosophical conclusion that in formal-logical syntactic studies on language the assumption that expression-types constitute the primary language layer while expression-tokens make the secondary one, can be neglected; thus, this speaks in favour of the opposing standpoint—the concretistic one—in the ontology of language syntax. In the works “Meaning and Interpretations”, Parts I and II (Chapters 5 and 6), it is underlined, however, that such semantic concepts as: meaning, denotation and interpretation are defined on the types level, yet their formal definitions require making use of notions of the tokens level. The semantic notions introduced in the above-mentioned articles are also used in the following works of the present selection, under the titles: “Three Principles of Compositionality” and “On Metaknowledge and Truth” (Chapters 7 and 8). They formalize two principles of compositionality that are well known in the literature on the subject, deriving from Frege, i.e. those of meaning and of denotation; they are related to the syntactic principle of compositionality which was introduced by the author. All the three principles are, at the same time, three conditions of homomorphism of categorial language algebra into three kinds of non-standard models of language (one syntactic and two semantic ones: intensional and extensional), which allows introducing three definitions of truthfulness into these models. The next two works in the collection, entitled: “On Language Adequacy” and “What is the Sense in Logic and Philosophy of Language” (Chapters 9 and 10) concern adequacy of categorial language syntax along with its dual semantics: intensional and extensional, and categorial compatibility of any of its syntactic categories with two corresponding semantic categories: intensional and extensional, based on the compatibility the syntactic category of each language expression with the ontological category assigned to its denotatum. The well-known problem of categorial compatibility for first-order quantifiers finds its solution in the paper “Categories of First-Order Quantifiers” (Chapter 11). In the work “Logic and Ontology of Language” (Chapter 12), being in a sense a summary of the considerations presented in the preceding chapters of the book, language is treated as an ontological being, characterized in compliance with the logical conception of language proposed by Ajdukiewicz. Application—like throughout the book—of tools of classical logic and set theory has resulted in emergence of a general formal logical theory of syntax, semantics and pragmatics of language, which takes into account duality in the understanding of linguistic expressions as tokens (concretes) and types (abstract objects). In terms that take into account a functional approach to language itself, there comes out an ontological neutrality of logic with respect to existential assumptions relating to the ontological nature of linguistic expressions and their extra-linguistic ontological counterparts. The issues connected with applying logic while explaining the manner of using linguistic tokens and linguistic types to determine notions of language communication are raised and illustrated in the last chapter of the work, bearing the title “A Logical Conceptualization of Knowledge on the Notion of Language Communication”. (shrink)

For Francisco Suárez, beings of reason are non-existent objects that we can think about, objects like goat-stags and round squares. The first section of the fifty-fourth of Suárez’s Metaphysical Disputations is about the ontological status of beings of reason. Suárez’s view has been the subject of disagreement in the literature because he sometimes says that there are beings of reason, and he sometimes says there are not. In this paper, I argue for and explain an ontological pluralist reading of (...) Suárez. Ontological pluralism is the claim that there is more than one way of being. I distinguish between two varieties of ontological pluralism, strict and non-strict, and argue that Suárez endorsed the latter. In the contemporary literature, it is sometimes alleged that ontological pluralism is an idle hypothesis, unintelligible or philosophically vacuous. I argue that Suárez has a response to this objection in his argument against ontological monism. (shrink)

Formal ontology as a main branch of metaphysics investigates categories of being. In the formal ontological approach to metaphysics, these ontological categories are analysed by ontological forms. This analysis, which we illustrate by some category systems, provides a tool to assess the clarity, exactness and intelligibility of different category systems or formal ontologies. We discuss critically different accounts of ontological form in the literature. Of ontological form, we propose a character- neutral relational account. In this metatheory, ontological forms (...) of entities are their standings in internal relations whose holding is neutral on the character of their relata. These relations are “formal ontological relations”. Entities belong to ontological categories because they stand in the same formal ontological relations. We hold a nominalist relationalism about ontological categories and forms. We conclude by showing that our metatheory is useful for understanding categorial fundamentality/non- fundamentality, different formal ontologies, and for unifying metaphysical questions. (shrink)

Two main claims are defended in this paper: first, that typical disputes in the literature about the ontology of physical objects are merely verbal; second, that the proper way to resolve these disputes is by appealing to common sense or ordinary language. A verbal dispute is characterized not in terms of private idiolects, but in terms of different linguistic communities representing different positions. If we imagine a community that makes Chisholm's mereological essentialist assertions, and another community that makes (...) Lewis's four-dimensionalist assertions, the members of each community speak the truth in their respective languages. This follows from an application of the principle of interpretive charity to the two communities. (shrink)

The richness of the term “unsettling” has made it readily employable for phenomenological accounts of racism in philosophy of race literature; yet, the term has been left largely under-theorized. Here, I argue that unsettling encounters can be said to occur when the unfamiliar other has come into contact with the boundary of one’s existential home. For many white people, interracial interactions produce an (often unwarranted) feeling of physical danger, but as I hope to show, this habitual (mis)perception of such (...) encounters is not merely a conditioned response; it also functions to subvert situations that might unsettle white identifies partially constituted by phenomenological demarcations of space along racial lines. Drawing on empirical literature and recent developments in critical phenomenology, I suggest that by exercising habitual, racist gestures and perceptions, white people (mis)perceive ontological threats to their worldview—e.g., a bookish Black student or a masculine gay man—as ontically threatening so as to avoid the kind of work and existential anguish that altering one’s normative expectations would require. (shrink)

This essay provides an opinionated survey of some recent developments in the literature on ontological dependence. Some of the most popular definitions of ontological dependence are formulated in modal terms; others in non-modal terms (e.g., in terms of the explanatory connective, ‘because’, or in terms of a non-modal conception of essence); some (viz., the existential construals of ontological dependence) emphasise requirements that must be met in order for an entity to exist; others (viz., the essentialist construals) focus on conditions (...) that must be satisfied in order for an entity to be the very entity it is at each time at which it exists; some are rigid, in the sense that they concern a relation between particular entities; others are generic, in the sense that they involve only a relation between an entity and some entities or other, which bear certain characteristics. I identify three potential measures of success with respect to which these different definitions of ontological dependence can be evaluated and consider the question of how well they in fact meet these desiderata. I end by noting that certain challenges face even the most promising essentialist construals of ontological dependence. (shrink)

We performed a qualitative analysis of the Thesaurus in order to assess its conformity with principles of good practice in terminology and ontology design. We used both the on-line browsable version of the Thesaurus and its OWL-representation (version 04.08b, released on August 2, 2004), measuring each in light of the requirements put forward in relevant ISO terminology standards and in light of ontological principles advanced in the recent literature. Version 04.08b of the NCI Thesaurus suffers from the same (...) broad range of problems that have been observed in other biomedical terminologies. For its further development, we recommend the use of a more principled approach that allows the Thesaurus to be tested not just for internal consistency but also for its degree of correspondence to that part of reality which it is designed to represent. (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)

What is the role of mathematics in scientific explanations? Does it/can it play an explanatory part? This question is at the core of the recent ontological debate in the philosophy of mathematics. My aim in this paper is to argue that the two main approaches to this problem found in recent literature (i.e. the top-down and the bottom-up approaches) are both deeply problematic. This has an important implication for the dispute over the existence of mathematical entities: to make progress (...) possible in this debate, we either have to find a different approach to the problem of the role of mathematics in scientific explanations (one that is not affected by the problems that, as I argue in this paper, plague the existing approaches), or we need to recast it in different terms. (shrink)

Statements about the behavior of biochemical entities (e.g., about the interaction between two proteins) abound in the literature on molecular biology and are increasingly becoming the targets of information extraction and text mining techniques. We show that an accurate analysis of the semantics of such statements reveals a number of ambiguities that have to be taken into account in the practice of biomedical ontology engineering: Such statements can not only be understood as event reporting statements, but also as (...) ascriptions of dispositions or tendencies that may or may not refer to collectives of interacting molecules or even to collectives of interaction events. (shrink)

In this paper, I propose the concept of the “animated persona,” a soundless voice that says, “I am here” and appears on the surface of someone or something. This concept can bring clarity to the experience of perceiving a kind of personhood on a corpse, a wooden mask, or even a tree. In the first half of this paper, I will examine some Japanese literature and a work of Viktor Frankl’s that discuss these phenomena. In the second half, I (...) will analyze the concept of animated persona from five perspectives: (1) a compelling power, (2) surface-ness, (3) religious experience, (4) universality, and (5) the meaning of “I.” Lastly, I will discuss the relationship among the three layers of biological object, animated persona, and self-conscious being. My aim is to shed new light on the meaning of the encounter between the living and the dead. (shrink)

The Salivaomics Knowledge Base (SKB) is designed to serve as a computational infrastructure that can permit global exploration and utilization of data and information relevant to salivaomics. SKB is created by aligning (1) the saliva biomarker discovery and validation resources at UCLA with (2) the ontology resources developed by the OBO (Open Biomedical Ontologies) Foundry, including a new Saliva Ontology (SALO). We define the Saliva Ontology (SALO; http://www.skb.ucla.edu/SALO/) as a consensus-based controlled vocabulary of terms and relations dedicated (...) to the salivaomics domain and to saliva-related diagnostics following the principles of the OBO (Open Biomedical Ontologies) Foundry. The Saliva Ontology is an ongoing exploratory initiative. The ontology will be used to facilitate salivaomics data retrieval and integration across multiple fields of research together with data analysis and data mining. The ontology will be tested through its ability to serve the annotation ('tagging') of a representative corpus of salivaomics research literature that is to be incorporated into the SKB. Background Saliva (oral fluid) is an emerging biofluid for non-invasive diagnostics used in the detection of human diseases. The need to advance saliva research is strongly emphasized by the National Institute of Dental and Craniofacial Research (NIDCR), and is included in the NIDCR's 2004- 2009 expert panel long-term research agenda [1]. The ability to monitor health status, disease onset, progression, recurrence and treatment outcome through noninvasive means is highly important to advancing health care management. Saliva is a perfect medium to be explored for personalized individual medicine including diagnostics, offering a non-invasive, easy to obtain means for detecting and monitoring diseases. Saliva testing potentially allows the patient to collect their own saliva samples at home, yielding convenience for the patient and savings in health costs, and facilitating multiple sampling. Specimen collection is less objectionable to patients and easier in children and elderly individuals. Due to these advantages. (shrink)

This work will be driven from an interdisciplinary inspiration. Multiple philosophical theories of sound perception and sound ontology that rely on considering sound as sound waves, events and environmental properties will be considered. We will try to show that these accounts cannot hold in face of the complexity of auditory experience. That will be done by resorting to a corpus of empirical literature that suggests that the experience of sound can be manipulated by visual components of experience. In (...) the last section we extend the previous considerations to the topic of artificial perception of sound and then we draw some speculative conclusions. (shrink)

In “Ontologies Relevant to behaviour change interventions: A Method for their Development” Wright, et al. outline a step by step process for building ontologies of behaviour modification – what the authors call the Refined Ontology Developmental Method (RODM) – and demonstrate its use in the development of the Behaviour Change Intervention Ontology (BCIO). RODM is based on the principles of good ontology building used by the Open Biomedical Ontology (OBO) Foundry in addition to those outlined in (...) (Arp, Smith, and Spear 2015). BCIO uses as its top-level ontology Basic Formal Ontology (BFO). The methods outlined in Wright, et al. are a valuable contribution to the field, especially the use of formal mechanisms for literature annotation and expert stakeholder review, and the BCIO will certainly play an important role in the extension of OBO Foundry ontologies into the behavioural domain. (shrink)

Commonsense ontology often conflicts with the ontology of our best scientific and philosophical theories. However, commonsense ontology, and commonsense belief systems in general, seems to be remarkably efficient and cognitively fundamental. In cases of contrast, it is better to find a way to reconcile commonsense and ”theoretical” ontologies. Given that commonsense ontologies are typically expressed within natural language, a classical procedure of reconciliation is semantical. The strategy is that of individuating the ”ontologically problematic” expressions of natural language (...) and paraphrasing the sentences in which they appear in a (formal) language whose commitments are compatible with those of our best theories. We believe that this strategy of reconciliation, though quite standard, especially in the philosophical literature, is problematic: for a start, it forces us to conclude that the ”real content” of our commonsense expressions and beliefs is different from what it appears. Commonsense ontology becomes just an illusion. We will thus propose an alternative approach: according to our view, a commonsense ontology is reconciled with a theoretical ontology in case it is shown that the explanation of why we believe in the existence of a problematic entity is compatible with our best theories. We will call this kind of reconciliation ”epistemic”. The advantage of an epistemic reconciliation is that commonsense ontology is treated in its own right and could be taken prima facie. Another advantage of the view is that epistemic reconciliation can be analysed through the notion of explaining away: a commonsense ontology is epistemically reconciled with a theoretical ontology if and only if the problematic entities of the commonsense ontology are explained away by ”respectable” entities of the theoretical ontology. In the final part of the paper, we sketch a formal analysis of explaining away. (shrink)

In recent work, the interrelated questions of whether there is a fundamental level to reality, whether ontological dependence must have an ultimate ground, and whether the monist thesis should be endorsed that the whole universe is ontologically prior to its parts have been explored with renewed interest. Jonathan Schaffer has provided arguments in favour of 'priority monism' in a series of articles (2003, 2004, 2007a, 2007b, forthcoming). In this paper, these arguments are analysed, and it is claimed that they are (...) not compelling: in particular, the possibility that there is no ultimate level of basic entities that compose everything else is on a par with the possibility of infinite 'upward' complexity. The idea that we must, at any rate, postulate an ontologically fundamental level for methodological reasons ( Cameron 2008 ) is also discussed and found unconvincing: all things considered, there may be good reasons for endorsing 'metaphysical infinitism'. In any event, a higher degree of caution in formulating metaphysical claims than found in the extant literature appears advisable. (shrink)

In the ontology of music the Aristotelian theory of musical works is the view that musical works are immanent universals. The Aristotelian theory (hereafter Musical Aristotelianism) is an attractive and serviceable hypothesis. However, it is overlooked as a genuine competitor to the more well-known theories of Musical Platonism and nominalism. Worse still, there is no detailed account in the literature of the nature of the universals that the Aristotelian identifies musical works with. In this paper, I argue that (...) the best version of Musical Aristotelianism identifies musical works with structural universals. I first motivate the view by outlining its explanatory benefits. I then argue that Musical Aristotelianism is preferable to Musical Platonism and present a novel account of musical works as structural universals by developing D. M. Armstrong’s theory of structural universals. I discuss the consequences of Musical Aristotelianism with respect to on-going issues in debates about musical works and defend the view against an influential objection, concluding that Musical Aristotelianism is a genuine competitor in debates about the nature of musical works. (shrink)

The computational genomics community has come increasingly to rely on the methodology of creating annotations of scientific literature using terms from controlled structured vocabularies such as the Gene Ontology (GO). We here address the question of what such annotations signify and of how they are created by working biologists. Our goal is to promote a better understanding of how the results of experiments are captured in annotations in the hope that this will lead to better representations of biological (...) reality through both the annotation process and ontology development, and in more informed use of the GO resources by experimental scientists. (shrink)

This paper proposes to define metaphor as a visual-material structure, the sphere of which is ontological rather than cognitive or conceptual. It argues that the essence of metaphor, as either an aesthetic or a communicative unit or both, resides in the qualitative dimension and appearance, or even materiality, of the metaphorical medium and its form. The paper thus offers a new theory of metaphor, focusing on the medium of metaphor, which composes and transfigures or reconstructs its target anew: a composition (...) that is prior to understanding or conceptualizing the target. In doing so, the paper presents a formalist ontology of metaphors, established via an externalist account of metaphors, as opposed to the prevailing cognitivist-conceptualist account which I characterize as internalist. The various kinds of metaphor – linguistic, poetic, visual or material – are based on their external structure, rather than an internal-conceptual mechanism of understanding, as assumed by a significant segment of the literature. Visual metaphor, therefore, is the paradigmatic kind of metaphor, the analysis of which can be generalized to other kinds of metaphor. Furthermore, the paper tries to overcome the current discrepancy between the formalist character of the metaphorical medium and the dominance of cognitivist and conceptualist theories of metaphor. Challenging these, I claim that if the identity of metaphor is indeed based on its composition, then it is actually based on its aesthetic qualities. That is to say, not only are there autonomous visual or material metaphors, that are not based on linguistic or conceptual ones, but linguistic and conceptual metaphors are based on visuality: they are enabled by the structural possibilities offered by visual media. (shrink)

The widely accepted approach in scholarly literature on Hannah Arendt’s The Human Condition emphasizes its political meaning and implications while neglecting its ontological dimensions. Against this trend, in this article I seek to uncover the implicit ontology that underlies her conception of the human condition. This human ontology appears to be comprised of five realms – the private, the public, intimacy, the social and the self. While Arendt explicitly bases her conception upon the first two, the paper (...) shows that the remaining three, although not defined as realms, are explored by her as such. These appear as autarchic contexts of human activity, which are not supposed to refer to each other. The problematic of this split between the different realms is widely discussed in the paper. Yet, the split of the self from the two pivotal realms – the private and the public – acquires a special interest, for it undermines the entire project of the human condition. (shrink)

It is often assumed that the first stage of many classical arguments for theism depends upon some version of the Principle of Sufficient Reason being true. Unfortunately for classical theists, PSR is a controversial thesis that has come under rather severe criticism in the contemporary literature. In this article, I grant for the sake of argument that every version of PSR is false. Thus, I concede with the critics of PSR, that it is possible that there is, at least, (...) one fact that is ontologically brute. I then proffer an epistemological challenge to ontological bruteness. Specifically, I argue that whenever a knowledge seeker, S, perceives some unexplained fact, F, it is never reasonable for S to believe F is ontologically brute. I conclude that, even if PSR is false, it is more reasonable to believe that the key premise in the first stage of classical arguments for theism is true. (shrink)

Ontology is a burgeoning field, involving researchers from the computer science, philosophy, data and software engineering, logic, linguistics, and terminology domains. Many ontology-related terms with precise meanings in one of these domains have different meanings in others. Our purpose here is to initiate a path towards disambiguation of such terms. We draw primarily on the literature of biomedical informatics, not least because the problems caused by unclear or ambiguous use of terms have been there most thoroughly addressed. (...) We advance a proposal resting on a distinction of three levels too often run together in biomedical ontology research: 1. the level of reality; 2. the level of cognitive representations of this reality; 3. the level of textual and graphical artifacts. We propose a reference terminology for ontology research and development that is designed to serve as common hub into which the several competing disciplinary terminologies can be mapped. We then justify our terminological choices through a critical treatment of the ‘concept orientation’ in biomedical terminology research. (shrink)

I give shape to a neglected debate in metaphysics, the debate over the ontological priority between individuality and collectivity. I distinguish the debate from more familiar ones in the recent literature and articulate what I call ontological collectivism, the view that collectivity is prior to individuality. I defend the in-principle intelligibility of the view from forceful general objections and argue that not only is it coherent but also of significant interest to the literature: it allows for overlooked alternatives (...) on a variety of central discussions. (shrink)

Kevin Harrelson's book commences with the following words: This book provides a philosophical analysis of the several debates concerning the "ontological argument" from the middle of the seventeenth to the beginning of the nineteenth century. My aim in writing it was twofold. First, I wished to provide a detailed and comprehensive account of the history of these debates, which I perceived to be lacking in the scholarly literature. Second, I wanted also to pursue a more philosophically interesting question concerning (...) the apparent unassailability of ontological arguments. In pursuit of this latter problem, the driving question that my account addresses is "why has this argument, or kind of argument, been such a constant in otherwise diverse philosophical contexts and periods?" I think that there is no doubt that Harrelson succeeds in the first of these aims. He has, indeed, produced a detailed scholarly account of the history of debates about ontological arguments from the middle of the seventeenth century to the beginning of the nineteenth. His history is engaging and interesting, covering a wide range of authors with diverse philosophical orientations: Descartes, Arnauld, Caterus, Gassendi, Hobbes, Mersenne, More, Geulincx, Cudworth, Locke, Clarke, Malebranche, Huet, Spinoza, Leibniz, Wolff, Baumgarten, Eberhard, Crusius, Kant, Mendelssohn, and Hegel, among others. It seems to me that anyone who works on the treatment of. (shrink)

This paper offers a social phenomenological reading of the globally binding practice of 'social distancing' in light of the precautionary measures against the spreading of the Covid-19 virus. Amid speculation about the far-reaching effects of temporarily applicable measures and foresights about the advent of an ethos that has been heralded by the media as the 'new normal', the ubiquitous phenomenon of social distancing calls for a fundamental ontological elucidation. The purported hermeneutic that is situated in the broader place branding and (...) experiential marketing literatures places Covid-19 in the shoes of Being, and, therefore, imagines how Being would behave ontologically if it were a virus. By positing that the virus does operate like Being, five these are formulated as experiential interpretive categories with regard to the ontological status of Covid-19. The adopted approach makes the following contributions to the extant literature: First, it addresses a wholly new phenomenon in place branding, namely a pre-branded place that is non-negotiable, globally applicable and seemingly equivalent to pure void. Second, it advances the application of phenomenological research in experiential consumption by highlighting the aptness of the so far peripheral (in the marketing discipline) strand of Heideggerian fundamental ontology. Third, it expands the notion of place in the place branding literature, by showing how spatialization is the outcome of temporalization, in line with the adopted phenomenological perspective. (shrink)

Recently, the debate on the ubiquity of fictional narrators – whether every fictional narrative has a fictional narrator – has spread from film to literature. George Wilson reacted to Noël Carroll’s and Andrew Kania’s claims that no fictional narrators but 1 explicit ones such as Ishmael from Herman Melville’s Moby-Dick exist. a near-ubiquity position claiming that almost every fictional novel, except those consisting exclusively of dialogue, has at least a minimal narrating agency or a fictional narrator. Yet, he disassociated (...) himself from the usual ontological-gap argument made to support such claims. In other words, he denied the main tenet of an argument made by Jerrold Levinson; the claim that only fictional entities are able of presenting fictional events to the reader or viewer. (shrink)

Research on the human microbiome has gen- erated a staggering amount of sequence data, revealing variation in microbial diversity at the community, species (or phylotype), and genomic levels. In order to make this complexity more manageable and easier to interpret, new units—the metagenome, core microbiome, and entero- type—have been introduced in the scientific literature. Here, I argue that analytical tools and exploratory statisti- cal methods, coupled with a translational imperative, are the primary drivers of this new ontology. By (...) reducing the dimensionality of variation in the human microbiome, these new units render it more tractable and easier to interpret, and hence serve an important heuristic role. Nonetheless, there are several reasons to be cautious about these new categories prematurely ‘‘hardening’’ into natural units: a lack of constraints on what can be sequenced metagenomically, freedom of choice in taxonomic level in defining a ‘‘core microbiome,’’ typological framing of some of the concepts, and possible reification of statistical constructs. Finally, lessons from the Human Genome Project have led to a translational imperative: a drive to derive results from the exploration of microbiome variation that can help to articulate the emerging paradigm of per- sonalized genomic medicine (PGM). There is a tension between the typologizing inherent in much of this research and the personal in PGM. (shrink)

Statements about the behavior of biological entities, e.g. about the interaction between two proteins, abound in the literature on molecular biology and are increasingly becoming the targets of information extraction and text mining techniques. We show that an accurate analysis of the semantics of such statements reveals a number of ambiguities that is necessary to take into account in the practice of biomedical ontology engineering. Several concurring formalizations are proposed. Emphasis is laid on the discussion of biological dispositions.

Two senses of ‘ontology’ can be distinguished in the current literature. First is the sense favored by information scientists, who view ontologies as software implementations designed to capture in some formal way the consensus conceptualization shared by those working on information systems or databases in a given domain. [Gruber 1993] Second is the sense favored by philosophers, who regard ontologies as theories of different types of entities (objects, processes, relations, functions) [Smith 2003]. Where information systems ontologists seek to (...) maximize reasoning efficiency even at the price of simplifications on the side of representation, philosophical ontologists argue that representational adequacy can bring benefits for the stability and resistance to error of an ontological framework and also for its extendibility in the future. In bioinformatics, however, a third sense of ‘ontology’ has established itself, above all as a result of the successes of the Gene Ontology (hereafter: GO), which is a tool for the representation and processing of information about gene products and their biological functions [Gene Ontology Consortium 2000]. We show how Basic Formal Ontology (BFO) has established itself as an overarching ontology drawing on all three of the strands distinguished above, and describe applications of BFO especially in the treatment of biological granularity. (shrink)

Providing empirically supportable instances of ontological emergence is notoriously difficult. Typically, the literature has focused on two possible sources. The first is the mind and consciousness; the second is within physics, and more specifically certain quantum effects. In this paper, I wish to suggest that the literature has overlooked a further possible instance of emergence, taken from the special science of linguistics. In particular, I will focus on the property of truth-evaluability, taken to be a property of sentences (...) as created by the language faculty within human minds (or brains). The claim will not be as strong as to suggest that the linguistic data and theories prove emergence. Rather the dialectical aim here is to say that we have some good reasons (even if not conclusive reasons) to think that the property is emergent. (shrink)