Results for 'Jonathan Bona'

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  1. Ontology Based Annotation of Contextualized Vital Signs.Goldfain Albert, Xu Min, Bona Jonathan & Barry Smith - 2013 - In Proceedings of the Fourth International Conference on Biomedical Ontology (ICBO). Montreal: pp. 28-33.
    Representing the kinetic state of a patient (posture, motion, and activity) during vital sign measurement is an important part of continuous monitoring applications, especially remote monitoring applications. In contextualized vital sign representation, the measurement result is presented in conjunction with salient measurement context metadata. We present an automated annotation system for vital sign measurements that uses ontologies from the Open Biomedical Ontology Foundry (OBO Foundry) to represent the patient’s kinetic state at the time of measurement. The annotation system is applied (...)
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  2. The ImmPort Antibody Ontology.William Duncan, Travis Allen, Jonathan Bona, Olivia Helfer, Barry Smith, Alan Ruttenberg & Alexander D. Diehl - 2016 - Proceedings of the International Conference on Biological Ontology 1747.
    Monoclonal antibodies are essential biomedical research and clinical reagents that are produced by companies and research laboratories. The NIAID ImmPort (Immunology Database and Analysis Portal) resource provides a long-term, sustainable data warehouse for immunological data generated by NIAID, DAIT and DMID funded investigators for data archiving and re-use. A variety of immunological data is generated using techniques that rely upon monoclonal antibody reagents, including flow cytometry, immunofluorescence, and ELISA. In order to facilitate querying, integration, and reuse of data, standardized terminology (...)
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  3.  86
    Protein Ontology: Enhancing and Scaling Up the Representation of Protein Entities.Darren A. Natale, Cecilia N. Arighi, Judith A. Blake, Jonathan Bona, Chuming Chen, Sheng-Chih Chen, Karen R. Christie, Julie Cowart, Peter D'Eustachio, Alexander D. Diehl, Harold J. Drabkin, William D. Duncan, Hongzhan Huang, Jia Ren, Karen Ross & Alan Ruttenberg - 2017 - Nucleic Acids Research 45 (D1):D339-D346.
    The Protein Ontology (PRO; http://purl.obolibrary.org/obo/pr) formally defines and describes taxon-specific and taxon-neutral protein-related entities in three major areas: proteins related by evolution; proteins produced from a given gene; and protein-containing complexes. PRO thus serves as a tool for referencing protein entities at any level of specificity. To enhance this ability, and to facilitate the comparison of such entities described in different resources, we developed a standardized representation of proteoforms using UniProtKB as a sequence reference and PSI-MOD as a post-translational modification (...)
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  4. Dancy, Jonathan. Practical Shape: A Theory of Practical Reasoning. Oxford: Oxford University Press, 2018. Pp. 208. $40.00. [REVIEW]Jonathan Way - 2019 - Ethics 129 (4):706-710.
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  5.  28
    Heritability and Etiology: Heritability Estimates Can Provide Causally Relevant Information.Jonathan Egeland - forthcoming - Personality and Individual Differences.
    Can heritability estimates provide causal information? This paper argues for an affirmative answer: since a non-nil heritability estimate satisfies certain characteristic properties of causation (i.e., association, manipulability, and counterfactual dependence), it increases the probability that the relation between genotypic variance and phenotypic variance is (at least partly) causal. Contrary to earlier proposals in the literature, the argument does not assume the correctness of any particular conception of the nature of causation, rather focusing on properties that are characteristic of causal relationships. (...)
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  6.  8
    Is Cartesian Skepticism Too Cartesian?Jonathan Vogel - 2018 - In Kevin Mc Cain & Ted Poston (eds.), The Mystery of Skepticism: New Explorations. Leiden, Netherlands: pp. 24-45.
    A prominent response is that Cartesian skepticism is too Cartesian. It arises from outmoded views in epistemology and the philosophy of mind that we now properly reject. We can and should move on to other things. §2 takes up three broadly Cartesian themes: the epistemic priority of experience, under-determination, and the representative theory of perception. I challenge some common assumptions about these, and their connection to skepticism. §3 shows how skeptical arguments that emphasize causal considerations can avoid some suspect Cartesian (...)
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  7. Heidegger Uncovered.Jonathan Lewis - 2012 - PhaenEx 7 (2):314-26.
    This paper analyses Mark A. Wrathall’s interpretation of Heidegger’s idea of alêtheia (Unverborgenheit) and its relation to the opening up of the world, the disclosure of being, and the uncovering of entities. It also assesses whether Wrathall’s interpretation of Heidegger is able to do the work necessary to justify the former’s criticisms of contemporary conceptions of the nature of truth, language, and history.
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  8. Hegel and the Ethics of Brandom’s Metaphysics.Jonathan Lewis - 2018 - European Journal of Pragmatism and American Philosophy 10 (2):1-21.
    In order to develop his pragmatist and inferentialist framework, Robert Brandom appropriates, reconstructs and revises key themes in German Idealism such as the self-legislation of norms, the social institution of concepts and facts, a norm-oriented account of being and the critique of representationalist accounts of meaning and truth. However, these themes have an essential ethical dimension, one that Brandom has not explicitly acknowledged. For Hegel, the determination of norms and facts and the institution of normative statuses take place in the (...)
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  9. Getting Obligations Right: Autonomy and Shared Decision Making.Jonathan Lewis - 2020 - Journal of Applied Philosophy 37 (1):118-140.
    Shared Decision Making (‘SDM’) is one of the most significant developments in Western health care practices in recent years. Whereas traditional models of care operate on the basis of the physician as the primary medical decision maker, SDM requires patients to be supported to consider options in order to achieve informed preferences by mutually sharing the best available evidence. According to its proponents, SDM is the right way to interpret the clinician-patient relationship because it fulfils the ethical imperative of respecting (...)
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  10. Review of John McMillan, The Methods of Bioethics: An Essay in Meta-Bioethics.Jonathan Lewis - 2019 - American Journal of Bioethics 19 (7):W4 - W5.
    Although McMillan recognizes that moral theory has its place, he suggests that by setting bioethics up as a discipline whose predominant issues are to do with theory, not only are students insulated from the broadness of its scope and the diversity of its methods, but the subject comes across as largely inaccessible to those without some formal train- ing in normative ethics and of limited practical signifi- cance to those dealing with concrete issues.
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  11. Patient Autonomy, Clinical Decision Making, and the Phenomenological Reduction.Jonathan Lewis & Søren Holm - 2022 - Medicine, Health Care and Philosophy 25 (4):615-627.
    Phenomenology gives rise to certain ontological considerations that have far-reaching implications for standard conceptions of patient autonomy in medical ethics, and, as a result, the obligations of and to patients in clinical decision-making contexts. One such consideration is the phenomenological reduction in classical phenomenology, a core feature of which is the characterisation of our primary experiences as immediately and inherently meaningful. This paper builds on and extends the analyses of the phenomenological reduction in the works of Husserl, Heidegger, and Merleau-Ponty (...)
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  12.  98
    Organoid Biobanking, Autonomy and the Limits of Consent.Jonathan Lewis & Søren Holm - 2022 - Bioethics 36 (7):742-756.
    In the debates regarding the ethics of human organoid biobanking, the locus of donor autonomy has been identified in processes of consent. The problem is that, by focusing on consent, biobanking processes preclude adequate engagement with donor autonomy because they are unable to adequately recognise or respond to factors that determine authentic choice. This is particularly problematic in biobanking contexts associated with organoid research or the clinical application of organoids because, given the probability of unforeseen and varying purposes for which (...)
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  13. The Method of Contrast and the Perception of Causality in Audition.E. Di Bona - 2014 - In Fabio Bacchini at al (ed.), New Advances in Causation, Agency and Moral Responsibility. pp. 79-93.
    The method of contrast is used within philosophy of perception in order to demonstrate that a specific property could be part of our perception. The method is based on two passages. I argue that the method succeeds in its task only if the intuition of the difference, which constitutes the core of the first passage, has two specific traits. The second passage of the method consists in the evaluation of the available explanations of this difference. Among the three outlined options, (...)
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  14. Some Considerations on Pitch.E. Di Bona - 2013 - Phenomenology and Mind 4:244-54.
    Pitch is an audible quality of sound which can be explained not only in terms of strong correlation with sound waves’ properties, but also by a neat correlation to the properties of the sounding object. This seems to be in favour of the theory of sound labelled “distal view”, according to which sound is the vibration of the sounding object.
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  15. Narrative and Essayistic Temporalities.E. Di Bona - 2015 - Narration and Reflection, Special Issue of Compar(a)ison: An International Journal of Comparative Literature:49-62.
    The issues of this essay concern whether there are ways of experiencing time that are specific to narration and whether such ways can also be applied to the experience of time in reflection. In order to tackle these issues, we shall compare and contrast the experience of time in life with both the temporal experiences of narration and the temporal experiences of reflection. We shall begin, then, with a discussion on what the “experience of time” is, in the attempt of (...)
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  16. Updating Incoherent Credences - Extending the Dutch Strategy Argument for Conditionalization.Glauber De Bona & Julia Staffel - forthcoming - Philosophy and Phenomenological Research.
    In this paper, we ask: how should an agent who has incoherent credences update when they learn new evidence? The standard Bayesian answer for coherent agents is that they should conditionalize; however, this updating rule is not defined for incoherent starting credences. We show how one of the main arguments for conditionalization, the Dutch strategy argument, can be extended to devise a target property for updating plans that can apply to them regardless of whether the agent starts out with coherent (...)
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  17. 全球研究报告——东南亚.Jonathan Adams, David Pendlebury, Gordon Rogers & Martin Szomszor - 2020 - 科学观察 15 (3):54-65.
    Jonathan Adams, David Pendlebury, Gordon Rogers, Martin Szomszor. 全球研究报告——东南亚[J]. 科学观察, 2020, 15(3): 54-65.
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  18. Fiat and Bona Fide Boundaries: Towards an Ontology of Spatially Extended Objects.Barry Smith & Achille C. Varzi - 1997 - In Stephen Hirtle & Andrew U. Frank (eds.), Spatial Information Theory: International Conference COSIT ‘97. Springer. pp. 103–119.
    Human cognitive acts are directed towards objects extended in space of a wide range of different types. What follows is a new proposal for bringing order into this typological clutter. The theory of spatially extended objects should make room not only for the objects of physics but also for objects at higher levels, including the objects of geography and of related disciplines. It should leave room for different types of boundaries, including both the bona fide boundaries which we find (...)
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  19. Philosophy of Psychiatry.Jonathan Y. Tsou - 2021 - Cambridge: Cambridge University Press.
    Jonathan Y. Tsou examines and defends positions on central issues in philosophy of psychiatry. The positions defended assume a naturalistic and realist perspective and are framed against skeptical perspectives on biological psychiatry. Issues addressed include the reality of mental disorders; mechanistic and disease explanations of abnormal behavior; definitions of mental disorder; natural and artificial kinds in psychiatry; biological essentialism and the projectability of psychiatric categories; looping effects and the stability of mental disorders; psychiatric classification; and the validity of the (...)
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  20. Fiat and Bona Fide Boundaries.Barry Smith & Achille C. Varzi - 2000 - Philosophy and Phenomenological Research 60 (2):401-420.
    There is a basic distinction, in the realm of spatial boundaries, between bona fide boundaries on the one hand, and fiat boundaries on the other. The former are just the physical boundaries of old. The latter are exemplified especially by boundaries induced through human demarcation, for example in the geographic domain. The classical problems connected with the notions of adjacency, contact, separation and division can be resolved in an intuitive way by recognizing this two-sorted ontology of boundaries. Bona (...)
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  21. Global Research Report – South and East Asia.Jonathan Adams, David Pendlebury, Gordon Rogers & Martin Szomszor - 2019 - Institute for Scientific Information.
    Global Research Report – South and East Asia by Jonathan Adams, David Pendlebury, Gordon Rogers & Martin Szomszor. Published by Institute for Scientific Information, Web of Science Group.
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  22. Jonathan Edwards's Monism.Antonia LoLordo - 2017 - Philosophers' Imprint 17.
    The 18th-century American philosopher Jonathan Edwards argues that nothing endures through time. I analyze his argument, paying particular attention to a central principle it relies on, namely that “nothing can exert itself, or operate, when and where it is not existing”. I also consider what I supposed to follow from the conclusion that nothing endures. Edwards is sometimes read as the first four-dimensionalist. I argue that this is wrong. Edwards does not conclude that things persist by having different temporal (...)
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  23. Models of Philosophical Thought Experimentation.Jonathan Andy Tapsell - 2014 - Dissertation, Australian National University
    The practice of thought experimentation plays a central role in contemporary philosophical methodology. Many philosophers rely on thought experimentation as their primary and even sole procedure for testing theories about the natures of properties and relations. This test procedure involves entertaining hypothetical cases in imaginative thought and then undergoing intuitions about the distribution of properties and relations in them. A theory’s comporting with an intuition is treated as evidence in favour of it; but a clash is treated as evidence against (...)
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  24. Jonathan Swift e o ceticismo.Jaimir Conte - 2018 - Sképsis 9 (17):57-73.
    The recovery of ancient skepticism in the sixteenth century had broad consequences in various intellectual domains, including fictional discourse. In the following centuries several authors echoed skeptical philosophical discourse and made literary use of skepticism. Jonathan Swift (1667-1745) is inserted in the hall of the modern writers who echoed and assimilated the skeptical tradition. Satires as A Tale of a Tub (1704), The Battle of Books (1704) and Gulliver's Travels (1726) are framed with marks of skepticism. Thus, my purpose (...)
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  25.  54
    The Ambiguous Legacy of Kuhn's Structure for Normative Philosophy of Science.Jonathan Y. Tsou - forthcoming - In K. Brad Wray (ed.), Kuhn's The Structure of Scientific Revolutions at 60. Cambridge, UK: Cambridge University Press.
    This chapter examines the legacy of Kuhn’s Structure for normative philosophy of science. As an argument regarding the history of 20th century philosophy of science, I contend that the main legacy of Structure was destructive: Structure shifted philosophy of science away from addressing general normative philosophical issues (e.g., the demarcation problem, empirical testability) towards more deflationary and local approaches to normative issues. This is evident in the first generation of post-Structure philosophers of science in the 1980s and 1990s, who adopted (...)
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  26. Historical Judgement: The Limits of Historiographical Choice.Jonathan L. Gorman - 2007 - Mcgill-Queen's University Press.
    The historical profession is not noted for examining its own methodologies. Indeed, most historians are averse to historical theory. In "Historical Judgement" Jonathan Gorman's response to this state of affairs is to argue that if we want to characterize a discipline, we need to look to persons who successfully occupy the role of being practitioners of that discipline. So to model historiography we must do so from the views of historians. Gorman begins by showing what it is to model (...)
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  27. The Life of a Style: Beginnings and Endings in the Narrative History of Art.Jonathan Gilmore - 2000 - Cornell University Press.
    In The Life of a Style, Jonathan Gilmore claims that such narrative developments inhere in the history of art itself.By exploring such topics as the discovery ...
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  28.  41
    全球研究报告——东南亚.Jonathan Adams, David Pendlebury, Gordon Rogers & Martin Szomszor - 2020 - 科学观察 15 (3):54-65.
    -/- 在一系列《全球研究报告》的调研过程中,我们一直希望对亚洲地区的研究现状进行一个描述,不仅限于中国、日本和韩国这些持续发展且颇受关注的国家。 -/- 这份《全球研究报告》调查了被称为南亚和东亚(S&E Asia)的地区,包括东盟集团及更广泛的地区。 .
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  29. What is Public Health?Jonathan Anomaly - 2021 - Public Choice 188.
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  30. The Future of Phage: Ethical Challenges of Using Phage Viruses to Treat Bacterial Infections.Jonathan Anomaly - 2020 - Public Health Ethics 13.
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  31. The Ethics of Genetic Enhancement: Key Concepts and Future Prospects.Jonathan Anomaly & Tess Johnson - forthcoming - In The Ethics of Human Enhancement. London: Routledge Press.
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  32. Race, Eugenics, and the Holocaust.Jonathan Anomaly - 2022 - In Ira Bedzow & Stacy Gallin (eds.), Bioethics and the Holocaust. Springer. pp. 153-170.
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  33. Can Liberalism Last? Demographic Demise and the Future of Liberalism.Jonathan Anomaly & Filipe Nobre Faria - forthcoming - Social Philosophy and Policy.
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  34. Intensive Animal Agriculture and Human Health.Jonathan Anomaly - 2020 - In Bob Fischer (ed.), Routledge Handbook of Animal Ethics. New York: Routledge.
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  35. Flesh Without Blood: The Public Health Argument for Synthetic Meat.Jonathan Anomaly, Diana Fleischman, Heather Browning & Walter Veit - manuscript
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  36. The Natural Definition of Reality.Jonathan Ochs - 2013 - Aporia 23 (2):13-23.
    The problem with ontological commitment is that when we symbolize the statements that we make about what 'exists' or what is 'real', they do not always translate to exactly that which we intend to express. In this essay, I explore the relation between 'Reality' and how we describe reality. I evaluate the accounts of three prominent philosophers on the topic, address their shortcomings, and introduce my own account; which I call "The Natural Definition of Reality".
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  37.  83
    Critical Performances.Jonathan A. Neufeld - 2012 - Teorema: International Journal of Philosophy (3):89-104.
    Philosophers of music commonly distinguish performative from critical interpretations. I would like to suggest that the distinction between critical and performative interpretations is well captured by an analogy to legal critics and judges. This parallel draws attention to several features of performative interpretation that are typically overlooked, and deemphasizes epistemic problems with performative interpretations that I believe are typically blown out of proportion and ultimately fail to capture interesting features of performative interpretation. There is an important distinction to be made (...)
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  38. A Puzzle About Economic Explanation: Examining the Cournot and Bertrand Models of Duopoly Competition.Jonathan Nebel - 2017 - Dissertation, Kansas State University
    Economists use various models to explain why it is that firms are capable of pricing above marginal cost. In this paper, we will examine two of them: the Cournot and Bertrand duopoly models. Economists generally accept both models as good explanations of the phenomenon, but the two models contradict each other in various important ways. The puzzle is that two inconsistent explanations are both regarded as good explanations for the same phenomenon. This becomes especially worrisome when the two models are (...)
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  39. Problems for Modal Reductionism: Concrete Possible Worlds as a Test Case.Jonathan Nassim - 2015 - Dissertation, Birkbeck College
    This thesis is an argument for the view that there are problems for Modal Reductionism, the thesis that modality can satisfactorily be defined in non-modal terms. -/- I proceed via a case study of David Lewis’s theory of concrete possible worlds. This theory is commonly regarded as the best and most influential candidate reductive theory of modality. Based on a detailed examination of its ontology, analysis and justification, I conclude that it does badly with respect to the following four minimal (...)
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  40. Societies Within: Selfhood Through Dividualism & Relational Epistemology.Jonathan Morgan -
    Most see having their individuality stifled as equivalent to the terrible forced conformity found within speculative fiction like George Orwell's 1984. However, the oppression of others by those in power has often been justified through ideologies of individualism. If we look to animistic traditions, could we bridge the gap between these extremes? What effect would such a reevaluation of identity have on the modern understanding of selfhood? The term ' in-dividual' suggests an irreducible unit of identity carried underneath all of (...)
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  41. Sympathy for the Scientist: Re-Calibrating a Heideggerian Critique of Metaphysics.Jonathan Morgan - manuscript
    This paper attempts to develop an ethico-aesthetic framework for enriching one's life and ethical outlook. Drawing primarily from Nietzsche, Foucault, and Heidegger, an argument is made that Heidegger's understanding of this issue was mistaken. The ontological crisis of modernity is not the overt influence of mathematics as a worldview over poetics and more traditionally aesthetic approaches. It is the rampant mis-and over-application of abstraction within one's view of the world while denying the material realities of life as we live it. (...)
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  42. Democracy Beyond Disclosure: Secrecy, Transparency, and the Logic of Self-Government.Jonathan Richard Bruno - 2017 - Dissertation, Harvard University
    "Transparency" is the constant refrain of democratic politics, a promised aid to accountability and integrity in public life. Secrecy is stigmatized as a work of corruption, tolerable by a compromise of democratic principles. My dissertation challenges both ideas. It argues that secrecy and transparency are best understood as complementary, not contradictory, practices. And it develops a normative account of liberal democratic politics in which duties of transparency coexist with permissions to act behind closed doors. The project begins with some history. (...)
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  43.  84
    The Phenomenal Contribution of Attention.Jonathan Mitchell - 2022 - Inquiry: An Interdisciplinary Journal of Philosophy.
    Strong or Pure Intentionalism is the view that the phenomenal character of a conscious experience is exhaustively determined by its intentional content. Contrastingly, impure intentionalism holds that there are also non content-based aspects or features which contribute to phenomenal character. Conscious attention is one such feature: arguably its contribution to the phenomenal character of a given conscious experience are not exhaustively captured in terms of what that experience represents, that is in terms of properties of its intentional object. This paper (...)
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  44.  59
    The Silent Space of the Vacuum.Jonathan Morgan - 2019 - Religious Theory.
    In this paper I argue that a reimagining of the notion of silence as more than a sonic phenomenon is needed to address the dominant structural apparati of Western discourse. Silence as an existential medium is where the Foucauldian apparatuses that power the status-quo of the world operate. They forge connections between things like ideology and social organization where one falls into the wake of the other and is shaped in a way that is nearly invisible to the passing glance. (...)
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  45. Review of Thomas Stern (Ed.), The New Cambridge Companion to Nietzsche, Cambridge. [REVIEW]Jonathan Mitchell - forthcoming - Notre Dame Philosophical Reviews.
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  46. Review of Jean Moritz Müller, The World-Directedness of Emotional Feeling. [REVIEW]Jonathan Mitchell - forthcoming - Philosophical Quarterly.
    Review of Jean Moritz Müller, The World-Directedness of Emotional Feeling.
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  47. Affective Persistence and the Normative Phenomenology of Emotion.Jonathan Mitchell - 2022 - In J. Deonna, C. Tappolet & F. Teroni (eds.), A Tribute to Ronald de Sousa.
    This paper presents a detailed analysis of affective persistence and its significance – that is the persistence of affect in the face of countervailing or contradictory evaluative information. More specifically, it appeals to the phenomena of affective persistence to support the claim that a significant portion of the emotional experiences of adult humans involve a kind of normative phenomenology. Its central claim is that by appealing to a distinctive kind of normative phenomenology that emotions exhibit, we get a neat personal (...)
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  48. Craftspersonhood: The Forging of Selfhood Through Making.Jonathan Morgan - manuscript
    This paper examines the unique structures of identity formation within the craftsperson/maker mindset and their relation to Western views of work and labor. The contemporary Maker Movement has its origins not only in the internet revolution, but also in the revival of handicraft during the last several economic recessions. Economic uncertainty drives people toward the ideals and practices of craft as a way to regain a sense of agency and control. One learns how to become an active participant in our (...)
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  49. Craft Theory And The Creation Of A New Capitalism.Jonathan Morgan - 2018 - The New Polis.
    This paper challenges the notion that the only way to progress to a post-capitalist society is through the wholesale destruction of the capitalist economic system. Instead, I argue that Craft —an existential state and praxis informed by the creation and maintenance of objects of utility—is uniquely situated to effectively reclaim these systems due to its its focus on materiality over abstraction and its unique position as a socially aware form of praxis. This argument focuses not on competition, but on hyper-abstraction (...)
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  50.  5
    Counting Minds and Mental States.Jonathan Vogel - 2014 - In David J. Bennett & Christopher S. Hill (eds.), Sensory Integration and the Unity of Consciousness. Cambridge, MA, USA: MIT Press. pp. 393-400.
    Important conceptual and metaphysical issues arise when we try to understand the mental lives of “split-brain” subjects. How many distinct streams of consciousness do they have? According to Elizabeth Schechter’s partial unity model, the answer is one. A related question is whether co-consciouness, in general, is transitive. That is, if α and β are co-conscious experiences, and β and γ are co-conscious experiences, must α and γ be co-conscious? According to Schechter, the answer is no. The partial unity model faces (...)
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