Results for 'Elser Justin'

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  1. The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses.Laurel Cooper, Ramona Walls, Justin Elser, Maria A. Gandolfo, Dennis W. Stevenson, Barry Smith & Others - 2013 - Plant and Cell Physiology 54 (2):1-23..
    The Plant Ontology (PO; http://www.plantontology.org/) is a publicly-available, collaborative effort to develop and maintain a controlled, structured vocabulary (“ontology”) of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and stages of plant development, using the data model adopted by the Gene Ontology. From its original design covering only rice, maize and Arabidopsis, the scope of the PO has been expanded (...)
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  2. The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.Laurel Cooper, Austin Meier, Marie-Angélique Laporte, Justin L. Elser, Chris Mungall, Brandon T. Sinn, Dario Cavaliere, Seth Carbon, Nathan A. Dunn, Barry Smith, Botong Qu, Justin Preece, Eugene Zhang, Sinisa Todorovic, Georgios Gkoutos, John H. Doonan, Dennis W. Stevenson, Elizabeth Arnaud & Pankaj Jaiswal - 2018 - Nucleic Acids Research 46 (D1):D1168–D1180.
    The Planteome project provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. The reference ontologies include the Plant Ontology, Plant Trait Ontology, and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. The project also provides (...)
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  3. Ontologies as Integrative Tools for Plant Science.Ramona Walls, Balaji Athreya, Laurel Cooper, Justin Elser, Maria A. Gandolfo, Pankaj Jaiswal, Christopher J. Mungall, Justin Preece, Stefan Rensing, Barry Smith & Dennis W. Stevenson - 2012 - American Journal of Botany 99 (8):1263–1275.
    Bio-ontologies are essential tools for accessing and analyzing the rapidly growing pool of plant genomic and phenomic data. Ontologies provide structured vocabularies to support consistent aggregation of data and a semantic framework for automated analyses and reasoning. They are a key component of the Semantic Web. This paper provides background on what bio-ontologies are, why they are relevant to botany, and the principles of ontology development. It includes an overview of ontologies and related resources that are relevant to plant science, (...)
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  4. The Plant Ontology facilitates comparisons of plant development stages across species.Ramona Lynn Walls, Laurel Cooper, Justin Lee Elser, Maria Alejandra Gandolfo, Christopher J. Mungall, Barry Smith, Dennis William Stevenson & Pankaj Jaiswal - 2019 - Frontiers in Plant Science 10.
    The Plant Ontology (PO) is a community resource consisting of standardized terms, definitions, and logical relations describing plant structures and development stages, augmented by a large database of annotations from genomic and phenomic studies. This paper describes the structure of the ontology and the design principles we used in constructing PO terms for plant development stages. It also provides details of the methodology and rationale behind our revision and expansion of the PO to cover development stages for all plants, particularly (...)
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  5. The Plant Ontology as a tool for comparative plant anatomy and genomic analyses.Cooper Laurel, Walls Ramona, L. Elser, Justin Gandolfo, A. Maria, Stevenson Dennis, W. Smith, Barry Preece, Justin Athreya, Balaji Mungall, J. Christopher, Rensing Stefan & Others - 2012 - Plant and Cell Physiology.
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  6. A plant disease extension of the Infectious Disease Ontology.Ramona Walls, Barry Smith, Elser Justin, Goldfain Albert, W. Stevenson Dennis & Pankaj Jaiswal - 2012 - In Proceedings of the Third International Conference on Biomedical Ontology (CEUR 897). pp. 1-5.
    Plants from a handful of species provide the primary source of food for all people, yet this source is vulnerable to multiple stressors, such as disease, drought, and nutrient deficiency. With rapid population growth and climate uncertainty, the need to produce crops that can tolerate or resist plant stressors is more crucial than ever. Traditional plant breeding methods may not be sufficient to overcome this challenge, and methods such as highOthroughput sequencing and automated scoring of phenotypes can provide significant new (...)
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  7. Proceeedings of the Third International Conference on Biomedical Ontology (CEUR 897).Walls Ramona, Smith Barry, Justin Elser, Albert Goldfain & W. Stevenson Dennis - 2012
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  8. The Plant Ontology: A common reference ontology for plants.L. Walls Ramona, D. Cooper Laurel, Elser Justin, W. Stevenson Dennis, Barry Smith, Mungall Chris, A. Gandolfo Maria & Jaiswal Pankaj - 2010 - In Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010.
    The Plant Ontology (PO) (http://www.plantontology.org) (Jaiswal et al., 2005; Avraham et al., 2008) was designed to facilitate cross-database querying and to foster consistent use of plant-specific terminology in annotation. As new data are generated from the ever-expanding list of plant genome projects, the need for a consistent, cross-taxon vocabulary has grown. To meet this need, the PO is being expanded to represent all plants. This is the first ontology designed to encompass anatomical structures as well as growth and developmental stages (...)
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  9. Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010.L. Walls Ramona, D. Cooper Laurel, Justin Elser, W. Stevenson Dennis, Smith Barry, Chris Mungall, A. Gandolfo Maria & Pankaj Jaiswal - 2010
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  10. Stoichiometry and the New Biology: The Future Is Now.James Elser & Andrew Hamilton - 2007 - PLoS Biology 5:181-183.
    The world is an untidy place, and the sciences—all of them—reflect this. One source of this untidiness is the relationship between levels of organization. Reducing macrolevels to microlevels—explaining the former in terms of the latter—has met with successes but has never been the whole story. In the biological sciences, there has been much attention lately to the shortcomings of reductionism on the grounds that (i) it changes the subject rather than explaining, (ii) it leads to a myopically molecular view of (...)
     
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  11. What Biological Functions Are and Why They Matter.Justin Garson - 2019 - New York: Cambridge University Press.
    The biological functions debate is a perennial topic in the philosophy of science. In the first full-length account of the nature and importance of biological functions for many years, Justin Garson presents an innovative new theory, the 'generalized selected effects theory of function', which seamlessly integrates evolutionary and developmental perspectives on biological functions. He develops the implications of the theory for contemporary debates in the philosophy of mind, the philosophy of medicine and psychiatry, the philosophy of biology, and biology (...)
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  12.  6
    Justin Sands: Hegelians in Heaven, but on Earth … Westphal’s Kierkegaardian Faith.Justin Sands - 2016 - Journal for the History of Modern Theology/Zeitschrift für Neuere Theologiegeschichte 23 (1):1-26.
    Merold Westphal’s new publication, Kierkegaard’s Concept of Faith, gives us an opportunity to explore the many ways in which Kierkegaard has influenced Westphal’s thinking as a whole. This present contribution seeks to show how Kierkegaard helps Westphal discover a concept of faith which holds no ‘reasonable’ foundation as it is entirely dependent upon two different aspects of revelation in tension with each other. Moreover, faith is seen as a willing assent by the believer, and thus it becomes a task and (...)
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  13. A Defense of the Counterfactual Comparative Account of Harm.Justin Klocksiem - 2012 - American Philosophical Quarterly 49 (4):285 – 300.
    Although the counterfactual comparative account of harm, according to which someone is harmed when things go worse for her than they otherwise would have, is intuitively plausible, it has recently come under attack. There are five serious objections in the literature: some philosophers argue that the counterfactual account makes it hard to see how we could harm someone in the course of benefitting that person; others argue that Parfit’s non-identity problem is particularly problematic; another objection claims that the account forces (...)
     
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  14. Early Christian philosophers: Justin, Irenaeus, Clement of alexandria, tertullian Eric osborn1.Irenaeus Justin - 2009 - In Graham Robert Oppy & Nick Trakakis (eds.), Medieval Philosophy of Religion: The History of Western Philosophy of Religion, Volume 2. Oxford University Press. pp. 3--187.
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  15. Justin Clardy on Love and Relationships.Justin L. Clardy - 2019 - In Myisha Cherry (ed.), Unmuted: Conversations on Prejudice, Oppression, and Social Justice. pp. 242-247.
  16. Symposium on Justin Remhof’s Nietzsche’s Constructivism: a Metaphysics of Material Objects.Justin Remhof - 2020 - Philosophia 49 (2):571-583.
    Symposium on Nietzsche's Constructivism (Routledge, 2018), replies to Adler, Cabrera, Doyle, Migotti, Sinhababu, Pedersen.
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  17.  26
    The Biological Mind: A Philosophical Introduction.Justin Garson - 2015 - London: Routledge.
    For some, biology explains all there is to know about the mind. Yet many big questions remain: is the mind shaped by genes or the environment? If mental traits are the result of adaptations built up over thousands of years, as evolutionary psychologists claim, how can such claims be tested? If the mind is a machine, as biologists argue, how does it allow for something as complex as human consciousness? The Biological Mind: A Philosophical Introduction explores these questions and more, (...)
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  18. Readings in Later Chinese Philosophy: Han to the 20th Century.Justin Tiwald & Bryan William Van Norden (eds.) - 2014 - Indianapolis: Hackett.
    An exceptional contribution to the teaching and study of Chinese thought, this anthology provides fifty-eight selections arranged chronologically in five main sections: Han Thought, Chinese Buddhism, Neo-Confucianism, Late Imperial Confucianism, and the early Twentieth Century. The editors have selected writings that have been influential, that are philosophically engaging, and that can be understood as elements of an ongoing dialogue, particularly on issues regarding ethical cultivation, human nature, virtue, government, and the underlying structure of the universe. Within those topics, issues of (...)
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  19.  45
    Contrastive Reasons.Justin Snedegar - 2017 - New York, NY: Oxford University Press.
    Justin Snedegar develops and defends contrastivism about reasons. This is the view that normative reasons are fundamentally reasons for or against actions or attitudes only relative to sets of alternatives. Simply put, reasons are always reasons to do one thing rather than another, instead of simply being reasons to do something, full stop.
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  20.  18
    The Meaning of "If".Justin Khoo - 2022 - New York, USA: Oxford University Press.
    Despite its small stature, "if" occupies a central place both in everyday language and the philosophical lexicon. In allowing us to talk about hypothetical situations, "if" raises a host of thorny philosophical puzzles about language and logic. Addressing them requires tools from linguistics, logic, probability theory, and metaphysics. Justin Khoo uses these tools to navigate a maze of interconnected issues about conditionals, some of which include: the nature of linguistic communication, the relationship between logical and natural languages, and the (...)
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  21. Virtue Ethics and Professional Roles.Justin Oakley & Dean Cocking - 2001 - New York: Cambridge University Press. Edited by Dean Cocking.
    Professionals, it is said, have no use for simple lists of virtues and vices. The complexities and constraints of professional roles create peculiar moral demands on the people who occupy them, and traits that are vices in ordinary life are praised as virtues in the context of professional roles. Should this disturb us, or is it naive to presume that things should be otherwise? Taking medical and legal practice as key examples, Justin Oakley and Dean Cocking develop a rigorous (...)
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  22. A Diversified Approach to Fission Puzzles.Justin Mooney - forthcoming - Journal of Philosophy.
    I introduce a new approach to fission puzzles called the Diversified Approach that proceeds by distinguishing different kinds of fission and assimilating each kind to a different ordinary phenomenon, such as breaking apart, replication, or part loss. To illustrate this approach, I apply it to the case of amoebic fission. The upshot is a novel account of amoebic fission according to which the dividing amoeba ceases to exist because it breaks apart. After developing this solution and highlighting some of its (...)
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  23. Epistemic Corruption and Manufactured Doubt: The Case of Climate Science.Justin B. Biddle, Anna Leuschner & Ian James Kidd - 2017 - Public Affairs Quarterly 31 (3):165-187.
    Criticism plays an essential role in the growth of scientific knowledge. In some cases, however, criticism can have detrimental effects; for example, it can be used to ‘manufacture doubt’ for the purpose of impeding public policy making on issues such as tobacco consumption and greenhouse gas emissions (e.g., Oreskes & Conway 2010). In this paper, we build on previous work by Biddle and Leuschner (2015) who argue that criticism that meets certain conditions can be epistemically detrimental. We extend and refine (...)
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  24. Value judgements and the estimation of uncertainty in climate modeling.Justin Biddle & Eric Winsberg - 2009 - In P. D. Magnus & Jacob Busch (eds.), New Waves in Philosophy of Science. Palgrave-Macmillan. pp. 172--197.
  25.  57
    Grandstanding: The Use and Abuse of Moral Talk.Justin Tosi & Brandon Warmke - 2020 - New York: Oxford University Press. Edited by Brandon Warmke.
    We are all guilty of it. We call people terrible names in conversation or online. We vilify those with whom we disagree, and make bolder claims than we could defend. We want to be seen as taking the moral high ground not just to make a point, or move a debate forward, but to look a certain way--incensed, or compassionate, or committed to a cause. We exaggerate. In other words, we grandstand. Nowhere is this more evident than in public discourse (...)
  26.  48
    The Theory and Practice of Experimental Philosophy.Justin Sytsma & Jonathan Livengood - 2015 - Peterborough, Ontario: Broadview Press. Edited by Jonathan Livengood.
    In recent years, developments in experimental philosophy have led many thinkers to reconsider their central assumptions and methods. It is not enough to speculate and introspect from the armchair - philosophers must subject their claims to scientific scrutiny, looking at evidence and in some cases conducting new empirical research. "The Theory and Practice of Experimental Philosophy" is an introduction and guide to the systematic collection and analysis of empirical data in academic philosophy. This book serves two purposes: first, it examines (...)
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  27.  2
    Die Lehre des Aristoteles uber das Wirken Gottes.K. Elser - 1894 - Philosophical Review 3:382.
  28.  6
    Luther's Tears: Hagar and the Limits of Empathy.Ashleigh Elser - 2022 - Studies in Christian Ethics 35 (3):471-485.
    In his Enarrationes in Genesin, Martin Luther finds stories of suffering he can ‘hardly read with dry eyes’. Recent scholars attribute profound ethical value to Luther's tears, especially those shed over the suffering of female characters. This article reconsiders the ethical salience of Luther's tears as a demonstration of interpretive empathy by examining his reading of Hagar and its modern reception history. By comparing Luther's reading of the enslaved Hagar to his reading of her master Abraham, it is argued that (...)
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  29.  6
    Pauling's revenge.Veit Elser - 2008 - Philosophical Magazine 88 (13-15):1883-1885.
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    The Mermin Fixed Point.Veit Elser - 2003 - Foundations of Physics 33 (11):1691-1698.
    The most efficient known method for solving certain computational problems is to construct an iterated map whose fixed points are by design the problem's solution. Although the origins of this idea go back at least to Newton, the clearest expression of its logical basis is an example due to Mermin. A contemporary application in image recovery demonstrates the power of the method.
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  31. Spinoza.Justin Steinberg & Valtteri Viljanen - 2021 - Cambridge: Polity. Edited by Valtteri Viljanen.
    Benedict de Spinoza is one of the most controversial and enigmatic thinkers in the history of philosophy. His greatest work, Ethics (1677), developed a comprehensive philosophical system and argued that God and Nature are identical. His scandalous Theological-Political Treatise (1670) provoked outrage during his lifetime due to its biblical criticism, anticlericalism, and defense of the freedom to philosophize. Together, these works earned Spinoza a reputation as a singularly radical thinker. -/- In this book, Steinberg and Viljanen offer a concise and (...)
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  32. Morality and the emotions.Justin Oakley - 1992 - New York: Routledge.
    Introduction In recent years there has been a welcome reawakening of philosophical interest in the emotions. A significant number of contemporary ...
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  33. Kant and the Most Difficult Thing That Could Ever Be Undertaken on Behalf of Metaphysics.Justin B. Shaddock - 2014 - History of Philosophy Quarterly 31 (1).
    Kant calls his Transcendental Deduction "the most difficult thing that could ever be undertaken on behalf of metaphysics" (4:260). Readers have found it not just difficult but downright impossible. I will address two long-standing problems. First, Kant seems to contradict his conclusion at the outset of his proof. He does so in both the 1781 and 1787 editions of his Critique of Pure Reason. Second, Kant seems to argue for his single conclusion twice over in his Critique's 1787 edition. I (...)
     
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  34.  77
    Reasons, oughts, and requirements.Justin Snedegar - 2016 - Oxford Studies in Metaethics 11:155-181.
    This paper raises a challenge for the recently popular reasons first approach to normativity, according to which all normative notions can be explained in terms of reasons. The reasons first theorist owes us an account of how these explanations go for all other normative notions. I focus here on requirement, and to a lesser extent, permission. There is a very plausible, widely accepted account of the relationship between your reasons and what you ought to do|roughly, what you ought to do (...)
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  35. The Identity of Properties.Justin Broackes - 1986
     
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  36. The Greeks on pleasure.Justin Cyril Bertrand Gosling & Christopher Charles Whiston Taylor - 1982 - New York: Oxford University Press. Edited by C. C. W. Taylor.
    Provides a critical and analytical history of ancient Greek theories on the nature of pleasure, and of its value and rolein human lfie, from the ealriest times down to the period of Epicurus and the early Stoics.
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  37.  40
    Advances in Experimental Philosophy of Mind.Justin Sytsma (ed.) - 2014 - New York: Bloomsbury.
    Leading researchers in the philosophy of mind present and explore cutting edge research in the exciting new field of experimental philosophy.
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  38.  28
    Beyond Fake News: Finding the Truth in a World of Misinformation.Justin P. McBrayer - 2020 - New York, NY, USA: Routledge.
    The world is swimming in misinformation. Conflicting messages bombard us every day with news on everything from politics and world events to investments and alternative health. The daily paper, nightly news, websites, and social media each compete for our attention and each often insist on a different version of the facts. Inevitably, we have questions: Who is telling the truth? How would we know? How did we get here? What can we do? Beyond Fake News answers these and other queries. (...)
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  39.  89
    Imitation, mirror neurons and autism.Justin H. G. Williams, Andrew Whiten, Thomas Suddendorf & David I. Perrett - unknown
    Various deficits in the cognitive functioning of people with autism have been documented in recent years but these provide only partial explanations for the condition. We focus instead on an imitative disturbance involving difficulties both in copying actions and in inhibiting more stereotyped mimicking, such as echolalia. A candidate for the neural basis of this disturbance may be found in a recently discovered class of neurons in frontal cortex, 'mirror neurons' (MNs). These neurons show activity in relation both to specific (...)
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  40. On Indicative And Subjunctive Conditionals.Justin Khoo - 2015 - Philosophers' Imprint 15.
    At the center of the literature on conditionals lies the division between indicative and subjunctive conditionals, and Ernest Adams’ famous minimal pair: If Oswald didn’t shoot Kennedy, someone else did. If Oswald hadn’t shot Kennedy, someone else would have. While a lot of attention is paid to figuring out what these different kinds of conditionals mean, significantly less attention has been paid to the question of why their grammatical differences give rise to their semantic differences. In this paper, I articulate (...)
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  41.  18
    Did Magic Matter? The Saliency of Magic in the Early Roman Empire1.Justin J. Meggitt - 2013 - Journal of Ancient History 1 (2):170-229.
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  42. Sadhana of Awakened Melanin: Devotional Practices to Help Transform Self and Other.Justin Miles - 2021 - In Valerie Mason-John (ed.), Afrikan wisdom: new voices talk Black liberation, Buddhism, and beyond. North Atlantic Books.
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  43.  73
    A Critical Overview of Biological Functions.Justin Garson - 2016 - Dordrecht: Springer.
    This book is a critical survey of and guidebook to the literature on biological functions. It ties in with current debates and developments, and at the same time, it looks back on the state of discourse in naturalized teleology prior to the 1970s. It also presents three significant new proposals. First, it describes the generalized selected effects theory, which is one version of the selected effects theory, maintaining that the function of a trait consists in the activity that led to (...)
  44.  49
    Nietzsche's Constructivism: A Metaphysics of Material Objects.Justin Remhof - 2018 - New York: Routledge.
    Like Kant, the German Idealists, and many neo-Kantian philosophers before him, Nietzsche was persistently concerned with metaphysical questions about the nature of objects. His texts often address questions concerning the existence and non-existence of objects, the relation of objects to human minds, and how different views of objects significantly impact various commitments in many areas of philosophy—not just metaphysics, but also semantics, epistemology, science, logic and mathematics, and even ethics. This book presents a systematic and comprehensive analysis of Nietzsche’s material (...)
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  45. When Obstinacy is a Better Policy.Justin Dallmann - 2017 - Philosophers' Imprint 17.
    For epistemic subjects like us, updating our credences incurs epistemic costs. Expending our limited processing power and working memory to properly update our credences by some information can come at the cost of not responding to other available information. It is thus desirable to flesh out and compare alternative ways of taking information into account in light of cognitive shortcomings like our own. This paper is a preliminary attempt to do so. I argue that it is better, in a range (...)
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  46.  14
    Spinoza's Political Psychology: The Taming of Fortune and Fear.Justin Steinberg - 2018 - New York: Cambridge University Press.
    Spinoza's Political Psychology advances a novel, comprehensive interpretation of Spinoza's political writings, exploring how his analysis of psychology informs his arguments for democracy and toleration. Justin Steinberg shows how Spinoza's political method resembles the Renaissance civic humanism in its view of governance as an adaptive craft that requires psychological attunement. He examines the ways that Spinoza deploys this realist method in the service of empowerment, suggesting that the state can affectively reorient and thereby liberate its citizens, but only if (...)
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  47. The W-defense Defended.Justin A. Capes - forthcoming - Ergo: An Open Access Journal of Philosophy.
    The W-defense is among the most prominent arguments for the principle of alternative possibilities (PAP). Here I offer some considerations in support of the W-defense and respond to what I see as the most forceful objections to it to date. My response to these objections invokes the well-known flicker of freedom response to Frankfurt cases. I argue that the W-defense and the flicker response are mutually reinforcing and together yield a compelling defense of PAP.
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  48.  23
    Microgenesis of face perception.Justine Sergent - 1986 - In H. Ellis, M. Jeeves, F. Newcombe & Andrew W. Young (eds.), Aspects of Face Processing. Martinus Nijhoff. pp. 17--33.
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  49.  28
    Madness: A Philosophical Exploration.Justin Garson - 2022 - New York, NY: Oxford University Press.
    Since the time of Hippocrates, madness has typically been viewed through the lens of disease, dysfunction, and defect. In 'Madness', philosopher of science Justin Garson presents a radically different paradigm for conceiving of madness and the forms that it takes. In this paradigm, which he calls madness-as-strategy, madness is neither a disease nor a defect, but a designed feature, like the heart or lungs.
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  50. An Episodic Account of Divine Personhood.Justin Mooney - 2021 - Religious Studies 57 (4):654-668.
    I present Ned Markosian's episodic account of identity under a sortal, and then use it to sketch a new model of the Trinity. I show that the model can be used to solve at least three important Trinitarian puzzles: the traditional ‘logical problem of the Trinity’, a less-discussed problem that has been dubbed the ‘problem of triunity’, and a problem about the divine processions that has been enjoying increased attention in the recent literature.
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