Results for 'Chris Mungall,'

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  1. An Improved Ontological Representation of Dendritic Cells as a Paradigm for All Cell Types.Masci Anna Maria, N. Arighi Cecilia, D. Diehl Alexander, E. Lieberman Anne, Mungall Chris, H. Scheuermann Richard, Barry Smith & G. Cowell Lindsay - 2009 - BMC Bioinformatics 10 (1):70.
    The Cell Ontology (CL) is designed to provide a standardized representation of cell types for data annotation. Currently, the CL employs multiple is_a relations, defining cell types in terms of histological, functional, and lineage properties, and the majority of definitions are written with sufficient generality to hold across multiple species. This approach limits the CL’s utility for cross-species data integration. To address this problem, we developed a method for the ontological representation of cells and applied this method to develop a (...)
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  2. CARO: The Common Anatomy Reference Ontology.Haendel Melissa, A. Neuhaus, Fabian Osumi-Sutherland, David Mabee, M. Paula, L. V. MejinoJosé, Mungall Chris, J. Smith & Barry - 2008 - In Anatomy Ontologies for Bioinformatics: Principles and Practice. Springer. pp. 327--349.
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  3. 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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  4. 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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  5. Relations in Biomedical Ontologies.Barry Smith, Werner Ceusters, Bert Klagges, Jacob Köhler, Anand Kuma, Jane Lomax, Chris Mungall, , Fabian Neuhaus, Alan Rector & Cornelius Rosse - 2005 - Genome Biology 6 (5):R46.
    To enhance the treatment of relations in biomedical ontologies we advance a methodology for providing consistent and unambiguous formal definitions of the relational expressions used in such ontologies in a way designed to assist developers and users in avoiding errors in coding and annotation. The resulting Relation Ontology can promote interoperability of ontologies and support new types of automated reasoning about the spatial and temporal dimensions of biological and medical phenomena.
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  6. Survey-Based Naming Conventions for Use in OBO Foundry Ontology Development.Schober Daniel, Barry Smith, Lewis Suzanna, E. Kusnierczyk, Waclaw Lomax, Jane Mungall, Chris Taylor, F. Chris, Rocca-Serra Philippe & Sansone Susanna-Assunta - 2009 - BMC Bioinformatics 10 (1):125.
    A wide variety of ontologies relevant to the biological and medical domains are available through the OBO Foundry portal, and their number is growing rapidly. Integration of these ontologies, while requiring considerable effort, is extremely desirable. However, heterogeneities in format and style pose serious obstacles to such integration. In particular, inconsistencies in naming conventions can impair the readability and navigability of ontology class hierarchies, and hinder their alignment and integration. While other sources of diversity are tremendously complex and challenging, agreeing (...)
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  7. National Center for Biomedical Ontology: Advancing Biomedicine Through Structured Organization of Scientific Knowledge.Daniel L. Rubin, Suzanna E. Lewis, Chris J. Mungall, Misra Sima, Westerfield Monte, Ashburner Michael, Christopher G. Chute, Ida Sim, Harold Solbrig, M. A. Storey, Barry Smith, John D. Richter, Natasha Noy & Mark A. Musen - 2006 - Omics: A Journal of Integrative Biology 10 (2):185-198.
    The National Center for Biomedical Ontology is a consortium that comprises leading informaticians, biologists, clinicians, and ontologists, funded by the National Institutes of Health (NIH) Roadmap, to develop innovative technology and methods that allow scientists to record, manage, and disseminate biomedical information and knowledge in machine-processable form. The goals of the Center are (1) to help unify the divergent and isolated efforts in ontology development by promoting high quality open-source, standards-based tools to create, manage, and use ontologies, (2) to create (...)
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  8. CARO: The Common Anatomy Reference Ontology.Melissa Haendel, Fabian Neuhaus, David Osumi-Sutherland, Paula M. Mabee, José L. V. Mejino Jr, Chris J. Mungall & Barry Smith - 2008 - In Anatomy Ontologies for Bioinformatics: Principles and Practice. Springer. pp. 327-349.
    The Common Anatomy Reference Ontology (CARO) is being developed to facilitate interoperability between existing anatomy ontologies for different species, and will provide a template for building new anatomy ontologies. CARO has a structural axis of classification based on the top-level nodes of the Foundational Model of Anatomy. CARO will complement the developmental process sub-ontology of the GO Biological Process ontology, using it to ensure the coherent treatment of developmental stages, and to provide a common framework for the model organism communities (...)
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  9. 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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  10. VO: Vaccine Ontology.Yongqun He, Lindsay Cowell, Alexander D. Diehl, H. L. Mobley, Bjoern Peters, Alan Ruttenberg, Richard H. Scheuermann, Ryan R. Brinkman, Melanie Courtot, Chris Mungall, Barry Smith & Others - 2009 - In ICBO 2009: Proceedings of the First International Conference on Biomedical Ontology. Buffalo:
    Vaccine research, as well as the development, testing, clinical trials, and commercial uses of vaccines involve complex processes with various biological data that include gene and protein expression, analysis of molecular and cellular interactions, study of tissue and whole body responses, and extensive epidemiological modeling. Although many data resources are available to meet different aspects of vaccine needs, it remains a challenge how we are to standardize vaccine annotation, integrate data about varied vaccine types and resources, and support advanced vaccine (...)
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  11.  19
    The RNA Ontology (RNAO): An Ontology for Integrating RNA Sequence and Structure Data.Robert Hoehndorf, Colin Batchelor, Thomas Bittner, Michel Dumontier, Karen Eilbeck, Rob Knight, Chris J. Mungall, Jane S. Richardson, Jesse Stombaugh & Eric Westhof - 2011 - Applied ontology 6 (1):53-89.
  12. An Improved Ontological Representation of Dendritic Cells as a Paradigm for All Cell Types.Anna Maria Masci, Cecilia N. Arighi, Alexander D. Diehl, Anne E. Liebermann, Chris Mungall, Richard H. Scheuermann, Barry Smith & Lindsay Cowell - 2009 - BMC Bioinformatics 10 (1):70.
  13.  67
    Chris Wickham’s Framing the Early Middle Ages.Chris Harman - 2011 - Historical Materialism 19 (1):98-108.
    While recognising the power and fundamental importance of Wickham’s Framing the Early Middle Ages, this essay explores some of the problems associated with the relative silence within the text about the issue of the forces of production and their development. By contrast, Harman suggests that Wickham’s most important contribution to our understanding of the period, his concept of a peasant-mode of production, is best understood against the backdrop of prior developments of the forces of production. Moreover, the peasant-mode’s temporality is (...)
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  14. Rezensionsabhandlung: Chris Thomale: Recht und Sprache.Chris Thomale - 2013 - Archiv für Rechts- und Sozialphilosophie 99 (3):420-432.
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  15.  33
    Chris Ware, Conference Poster, “Comics: Philosophy and Practice,” May 2012.Chris Ware - 2014 - Critical Inquiry 40 (3):Foldout-Foldout.
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    Rejoinder to the Respondents to Chris Matthew Sciabarra's Fall 2002 Article: Rand, Rock, and Radicalism.Chris Matthew Sciabarra - 2003 - Journal of Ayn Rand Studies 5 (1):229 - 241.
    Sciabarra replies to the seven respondents to his Fall 2002 essay on Rand, Rush, and progressive rock music. He defends the view that Rand's dialectical orientation underlies a fundamentally radical perspective. Rand shared with the counterculture—especially its libertarian progressive rock representatives—a repudiation of authoritarianism, while embracing the "unknown ideal" of capitalism. Her ability to trace the interrelationships among personal, cultural, and structural factors in social analysis and her repudiation of false alternatives is at the heart of that ideal vision, which (...)
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  17.  46
    Letter From London, on Chris Petit, Abbas Kiarostami, Lynne Ramsay, Iain Sinclair, J. G. Ballard, and Surveillance Cinema.Chris Darke - 2003 - Film-Philosophy 7 (1).
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  18.  35
    Book Reviews: Old Europe, New Europe, Core Europe: Transatlantic Relations After the Iraq War: Edited by D. Levy, M. Pensky and J. Torpey London: Verso, 2005 Reviewed by Chris Rumford. [REVIEW]Chris Rumford - 2007 - Theory, Culture and Society 24 (3):169-173.
  19.  25
    Ethics Gets in the Way: A Reply to David Bastow: Chris Gudmunsen.Chris Gudmunsen - 1972 - Religious Studies 8 (4):311-318.
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  20.  6
    The Palgrave Handbook of Philosophical Methods.Chris Daly (ed.) - 2015 - Palgrave-Macmillan.
    The Palgrave Handbook of Philosophical Methods contains twenty-six original and substantive papers examining a wide selection of philosophical methods. Drawing upon an international range of leading contributors, this Handbook will help shape future debates about how philosophy should be done. Topics explored include philosophical disagreement, thought experiments, intuitions, rational reflection, conceptual analysis, explanation, parsimony, and experimental philosophy. Written in a clear and accessible form, and drawing upon the most recent thinking in the field, the papers will be of particular interest (...)
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  21. The Genealogy of Knowledge a Darwinian Approach to Epistemology and Philosophy of Science.Chris Buskes - 1998
     
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  22.  22
    The Philosophy of Humor: What Makes Something Funny.Chris A. Kramer - 2022 - 1000-Word Philosophy: An Introductory Anthology.
    People can laugh at almost anything. What’s the deal with that? What makes something funny? -/- This essay reviews some theories of what it is for something to be funny. Each theory offers insights into this question, but no single approach provides a comprehensive answer.
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  23. Sacred Forests of Asia: Spiritual Ecology and the Politics of Nature Conservation.Chris Coggins & Bixia Chen (eds.) - 2022 - New York: Routledge.
    Presenting a thorough examination of the sacred forests of Asia, this volume engages with dynamic new scholarly dialogues on the nature of sacred space, place, landscape, and ecology in the context of the sharply contested ideas of the Anthropocene. Given the vast geographic range of sacred groves in Asia, this volume discusses the diversity of associated cosmologies, ecologies, traditional local resource management practices, and environmental governance systems developed during the pre-colonial, colonial, and post-colonial periods. Adopting theoretical perspectives from political ecology, (...)
     
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  24. Subversive Humor.Chris A. Kramer - 2015 - Dissertation, Marquette
    Oppression is easily recognized. That is, at least, when oppression results from overt, consciously professed racism, for example, in which violence, explicit exclusion from economic opportunities, denial of adequate legal access, and open discrimination perpetuate the subjugation of a group of people. There are relatively clear legal remedies to such oppression. But this is not the case with covert oppression where the psychological harms and resulting legal and economic exclusion are every bit as real, but caused by concealed mechanisms subtly (...)
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  25. Philosophy of Psychedelics.Chris Letheby - 2021 - Oxford, UK: Oxford University Press.
    Recent clinical trials show that psychedelics such as LSD and psilocybin can be given safely in controlled conditions, and can cause lasting psychological benefits with one or two administrations. Supervised psychedelic sessions can reduce symptoms of anxiety, depression, and addiction, and improve well-being in healthy volunteers, for months or even years. But these benefits seem to be mediated by "mystical" experiences of cosmic consciousness, which prompts a philosophical concern: do psychedelics cause psychological benefits by inducing false or implausible beliefs about (...)
  26. Parrhesia, Humor, and Resistance.Chris Kramer - 2020 - Israeli Journal of Humor Research 9 (1):22-46.
    This paper begins by taking seriously former slave and abolitionist Frederick Douglass’ response in his What to the Slave is the Fourth of July? to systematic violence and oppression. He claims that direct argumentation is not the ideal mode of resistance to oppression: “At a time like this, scorching irony, not convincing argument, is needed.” I will focus on a few elements of this playful mode of resistance that conflict with the more straightforward strivings for abstract, universal, objective, convergent, absolute (...)
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  27. IRL: Finding Realness, Meaning, and Belonging in Our Digital Lives.Chris Stedman - 2020 - Minneapolis: Broadleaf Books, an imprint of 1517 Media.
    It's easy and reflexive to view our online presence as fake, to see the internet as a space we enter when we aren't living our real, offline lives. Yet so much of who we are and what we do now happens online, making it hard to know which parts of our lives are real. IRL, Chris Stedman's personal and searing exploration of authenticity in the digital age, shines a light on how age-old notions of realness--who we are and where (...)
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  28. Music in the Collective Lives of Prisoners.Chris Waller - 2023 - In Eleanor Peters (ed.), Music in Crime, Resistance, and Identity.
     
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  29. Music in the Collective Lives of Prisoners.Chris Waller - 2023 - In Eleanor Peters (ed.), Music in crime, resistance, and identity. Routledge.
     
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  30. Self Unbound: Ego Dissolution in Psychedelic Experience.Chris Letheby & Philip Gerrans - 2017 - Neuroscience of Consciousness 3:1-11.
    Users of psychedelic drugs often report that their sense of being a self or ‘I’ distinct from the rest of the world has diminished or altogether dissolved. Neuroscientific study of such ‘ego dissolution’ experiences offers a window onto the nature of self-awareness. We argue that ego dissolution is best explained by an account that explains self-awareness as resulting from the integrated functioning of hierarchical predictive models which posit the existence of a stable and unchanging entity to which representations are bound. (...)
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  31. Philosophy of Cosmology.Chris Smeenk - 2013 - In Robert Batterman (ed.), Oxford Handbook of Philosophy of Physics. Oxford: Oxford University Press. pp. 607-652.
  32.  2
    In Kierkegaard's Garden with the Poppy Blooms: Why Derrida Doesn't Read Kierkegaard When He Reads Kierkegaard.Chris Boesel - 2021 - Lanham: Fortress Academic.
    In this book, Chris Boesel argues that Derrida’s misreading of Fear and Trembling is the source of a blind spot in deconstructive engagements with “confessional faith,” erasing the Kierkegaardian possibility of a “deconstructive deconstructibility” that disrupts human mastery over God and neighbor and calls for concrete commitments to justice.
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  33. Time Travel and Time Machines.Chris Smeenk & Christian Wuthrich - 2011 - In Craig Callender (ed.), The Oxford Handbook of Philosophy of Time. Oxford: Oxford University Press. pp. 577-630.
    This paper is an enquiry into the logical, metaphysical, and physical possibility of time travel understood in the sense of the existence of closed worldlines that can be traced out by physical objects. We argue that none of the purported paradoxes rule out time travel either on grounds of logic or metaphysics. More relevantly, modern spacetime theories such as general relativity seem to permit models that feature closed worldlines. We discuss, in the context of Gödel's infamous argument for the ideality (...)
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  34.  6
    Continuations and Natural Language.Chris Barker & Chung-Chieh Shan - 2014 - Oxford University Press.
    This book takes concepts developed by researchers in theoretical computer science and adapts and applies them to the study of natural language meaning. Summarizing over a decade of research, Chris Barker and Chung-chieh Shan put forward the Continuation Hypothesis: that the meaning of a natural language expression can depend on its own continuation.
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  35.  5
    Killing Our Way Out of Violence: Engaging Wrangham's The Goodness Paradox.Chris Haw & Richard Wrangham - 2022 - Contagion: Journal of Violence, Mimesis, and Culture 29 (1):63-99.
    In lieu of an abstract, here is a brief excerpt of the content:Killing Our Way Out of ViolenceEngaging Wrangham's The Goodness ParadoxChris Haw (bio) and Richard Wrangham (bio)Wrangham's Goodness Paradox (GP) offers excellent anthropological research for mimetic theorists interested in the questions of human evolution and violence. It theorizes a framework of how group killing played a selective function in the emergence of our species, but it leaves open plenty of questions and concerns for productive, critical dialogue. Wolfgang Palaver has (...)
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  36. Kant and the Cultivation of Virtue.Chris W. Surprenant - 2014 - Routledge.
    In this book, Chris W. Surprenant puts forward an original position concerning Kant’s practical philosophy and the intersection between his moral and political philosophy. Although Kant provides a detailed account of the nature of morality, the nature of human virtue, and how right manifests itself in civil society, he does not explain fully how individuals are able to become virtuous. This book aims to resolve this problem by showing how an individual is able to cultivate virtue, the aim of (...)
     
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  37. Scepticism About Grounding.Chris Daly - 2012 - In Fabrice Correia & Benjamin Schnieder (eds.), Metaphysical Grounding: Understanding the Structure of Reality. Cambridge University Press. pp. 81.
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  38. Michael Smith, Rationalism, And The Moral Psychology Of Psychopathy.Chris Zarpentine - 2007 - Florida Philosophical Review 7 (1):1-15.
    In this paper, on the basis of psychological research concerning psychopathy, I argue against one claim a moral rationalist—such as Michael Smith —might make. First, I distinguish three rationalist claims the moral rationalist might make: the rationalists' conceptual claim, the rationalists' substantial claim, and the practicality requirement. Then, I go on to discuss some of the subtle relations between these claims. I argue that, if we have reason to reject the rationalists' substantial claim, this gives us prima facie reason to (...)
     
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  39. Ideality and Cognitive Development: Further Comments on Azeri’s “The Match of Ideals”.Chris Drain - 2020 - Social Epistemology Review and Reply Collective 9 (11):15-27.
    Siyaves Azeri (2020) quite well shows that arithmetical thinking emerges on the basis of specific social practices and material engagement (clay tokens for economic exchange practices beget number concepts, e.g.). But his discussion here is relegated mostly to Neolithic and Bronze Age practices. While surely such practices produced revolutions in the cognitive abilities of many humans, much of the cognitive architecture that allows normative conceptual thought was already in place long before this time. This response, then, is an attempt to (...)
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  40.  90
    Commands and Collaboration in the Origin of Human Thinking: A Response to Azeri’s “On Reality of Thinking”.Chris Drain - 2021 - Social Epistemology Review and Reply Collective 10 (3):6-14.
    L.S. Vygotsky’s “regulative” account of the development of human thinking hinges on the centralization of “directive” speech acts (commands or imperatives). With directives, one directs the activity of another, and in turn begins to “self-direct” (or self-regulate). It’s my claim that Vygotsky’s reliance on directives de facto keeps his account stuck at Tomasello's level of individual intentionality. Directive speech acts feature prominently in Tomasello’s developmental story as well. But Tomasello has the benefit of accounting for a functional differentiation in directive (...)
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  41.  48
    Architecture as Identity: The Essence of Architecture.Chris Abel - 1980 - In Semiotics 1980. New York: Plenum Press. pp. 1-11.
    This article explores the arguments for architecture having an identifiable essence equivalent to Heidegger's concept of 'dwelling' and place identity, versus those who claim it is no more than a 'hybrid' collection of many different technical, social and cultural practices. The opposing positions in architecture are compared by analogy with the opposing theories of language which underly them, the latter position being associated with the universalist theory of language propagated by Chomsky, while the purpose of architecture in identity formation is (...)
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  42. Psychedelics and Meditation: A Neurophilosophical Perspective.Chris Letheby - forthcoming - In Rick Repetti (ed.), The Routledge Handbook of the Philosophy of Meditation.
    Psychedelic ingestion and meditative practice are both ancient methods for altering consciousness that became widely known in Western society in the second half of the 20th century. Do the similarities begin and end there, or do these methods – as many have claimed over the years – share some deeper common elements? In this chapter I take a neurophilosophical approach to this question and argue that there are, indeed, deeper commonalities. Recent empirical studies show that psychedelics and meditation modulate overlapping (...)
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  43.  44
    Eco-Culture, Development, and Architecture.Chris Abel - 1993 - Knowledge, Technology & Policy 6 (3-4):10-28.
    This article examines the prospects for an authentic regional architecture in the light of alternative development paradigms. It is argued that the failure of orthodox development strategies and the domination of western culture, including architecture, over non-Western cultures, is due to fundamental imbalances between northern and southern economic structures. By contrast, ecodevelopment, appropriate technology and regional architecture all represent significant devolutionary movements toward a global “eco-culture.” A cultural typology placing eco-culture in historical perspective is outlined. It is concluded that, to (...)
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  44. Chris Butler.Spatial Abstraction, Legal Violence & the Promise Of Appropriation - 2018 - In Andreas Philippopoulos-Mihalopoulos (ed.), Routledge Handbook of Law and Theory. Routledge.
     
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  45. Ayn Rand: The Russian Radical.Chris Matthew Sciabarra - 2013 - Pennsylvania State University Press.
    Author of _The Fountainhead_ and _Atlas Shrugged_, Ayn Rand is one of the most widely read philosophers of the twentieth century. Yet, despite the sale of over thirty million copies of her works, there have been few serious scholarly examinations of her thought. _Ayn Rand: The Russian Radical_ provides a comprehensive analysis of the intellectual roots and philosophy of this controversial thinker. It has been nearly twenty years since the original publication of Chris Sciabarra’s _Ayn Rand: The Russian Radical_. (...)
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  46.  47
    Being for No-One.Chris Letheby - 2020 - Philosophy and the Mind Sciences 1 (I):1-26.
    Can there be phenomenal consciousness without self-consciousness? Strong intuitions and prominent theories of consciousness say “no”: experience requires minimal self-awareness, or “subjectivity”. This “subjectivity principle” faces apparent counterexamples in the form of anomalous mental states claimed to lack self-consciousness entirely, such as “inserted thoughts” in schizophrenia and certain mental states in depersonalization disorder. However, Billon & Kriegel have defended SP by arguing that while some of these mental states may be totally selfless, those states are not phenomenally conscious and thus (...)
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  47. Tomasello, Vygotsky, and the Phylogenesis of Mind: A Reply to Potapov’s “Objectification and the Labour of the Negative in the Origin of Human Thinking”.Chris Drain - 2021 - Social Epistemology Review and Reply Collective 10 (6):23-29.
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  48. Surrogate's Personal Sense of Duty as a Crucial Element in Medical Decision-Making : Ethical, Empirical, and Experience-Based Perspectives.Chris Feudtner & Douglas Hill - 2021 - In John D. Lantos (ed.), The ethics of shared decision making. Oxford University Press.
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  49. Law and Policy for the Quantum Age.Chris Jay Hoofnagle - 2021 - New York: Cambridge University Press.
    the smallest scales-why a molecule of water gets hot in a microwave oven, or how a uranium atom splits in a nuclear reactor. The rules of quantum mechanics are often counterintuitive and seem incompatible with our everyday experiences. Over the past century, deeper understanding of quantum mechanics has given scientists better control of the quantum world and quantum effects. This control provides technologists with new ways to acquire, process, and transmit information as part of a new scientific field known as (...)
     
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  50.  57
    The Routledge Handbook of Propositions.Chris Tillman & Adam Murray (eds.) - 2022 - Routledge.
    Provides a comprehensive overview of the philosophy of propositions, from both historical and contemporary perspectives. Comprising 33 original chapters by an international team of scholars, the volume addresses both traditional and emerging questions concerning the nature of propositions.
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