For many years there has been a debate about the role of the parietal lobe in the generation of behavior. Does it generate movement plans (intention) or choose objects in the environment for further processing? To answer this, we focus on the lateral intraparietal area (LIP), an area that has been shown to play independent roles in target selection for saccades and the generation of visual attention. Based on results from a variety of tasks, we propose that LIP acts as (...) a priority map in which objects are represented by activity proportional to their behavioral priority. We present evidence to show that the priority map combines bottom-up inputs like a rapid visual response with an array of top-down signals like a saccade plan. The spatial location representing the peak of the map is used by the oculomotor system to target saccades and by the visual system to guide visual attention. (shrink)

Provides an account of how necessary subjective syntactic investments on the part of speakers affect the semantic contents of their words and the possibilities for their thought-contents.

Ontology is one strategy for promoting interoperability of heterogeneous data through consistent tagging. An ontology is a controlled structured vocabulary consisting of general terms (such as “cell” or “image” or “tissue” or “microscope”) that form the basis for such tagging. These terms are designed to represent the types of entities in the domain of reality that the ontology has been devised to capture; the terms are provided with logical defi nitions thereby also supporting reasoning over the tagged data. Aim: This (...) paper provides a survey of the biomedical imaging ontologies that have been developed thus far. It outlines the challenges, particularly faced by ontologies in the fields of histopathological imaging and image analysis, and suggests a strategy for addressing these challenges in the example domain of quantitative histopathology imaging. The ultimate goal is to support the multiscale understanding of disease that comes from using interoperable ontologies to integrate imaging data with clinical and genomics data. (shrink)

In this eleventh book of scilogs – called in-turns and out-turns –, one may find new and old questions and solutions, referring mostly to topics on Neutrosophy, but also Multispace, with miscellaneous addition of topics on Physics, Mathematics, or Sociology – email messages to research colleagues, or replies, notes about authors, articles, or books, spontaneous ideas, and so on. -/- Exchanging ideas with Prem Kumar Singh, Feng Liu, Nicolae Bălașa, Jimmy Quellet, Minodora Rușchița, Frank Gelli, A. R. Vătuiu, Victor Christianto, (...) Vladimir I. Rogozhin, Robert Neil Boyd, Akira Kanda, Stefan Spaarmann, Oliver Consa, Yabin Shao, Junle Zhuo, Nivetha Martin, Said Broumi, Jean Dezert, Erick González, Tomasz Witczak, B. De Baets, I. Couso, D. Dubois, L. Good, Mihaela Colhon, Atiqe Ur Rahman, Muhammad Saeed, Muhammad Ihsan, Edeline Nancy, Shawkat Alkhazaleh, Shazia Rana, Vasantha Kandasamy, Santanu Acharjee, Mohamed Al-Shmrani, Parimala Manie, Mehmet Unver, Murat Olgun, Adel Aleidhri, Akira Kanda, Ilanthenral Kandasamy, Mircea Zărnescu, R. Tayebi Khorami, Arsham Borumand Saeid, Maisam Jdid, M. Abobala, Riad Hamido, Rafael Rojas, Esmaeil Zarei, Faisal Khan, Rouzbeh Abbassi, Adel Al-Odhari, Henry Garrett, Ackbar Rezaei, Saeid Jafari, Karthika Muthusamy, Harish Garg, Huda E. Khalid, Gonca D. Güngör, Muslim A. Noah Zainal, Fakhry Asad Agusfrianto, Madeleine Al-Tahan, Mariam Hariri, Yudi Mahatma, Masoud Ghods, Marco Brigliadori, Luis Enrique Aponte Pérez, Amr Mohammed, M. Aslam (in order of reference in the book). (shrink)

A parcialidade epistêmica na amizade (PE) é a tese segundo a qual ser um bom amigo de alguém envolve tratar essa pessoa de forma diferente, em um sentido epistêmico. Sarah Stroud (2006) e Simon Keller (2004) defenderam essa tese e argumentaram que ela está em tensão direta com demandas de racionalidade epistêmica. A posição deles é que quando nossos amigos estão envolvidos em algum assunto ao qual temos que dar nossa avaliação (sobre os fatos, suas ações ou seu caráter), tendemos (...) a dar à questão um tratamento epistêmico diferencial, não reservado a não-amigos. Neste artigo, quero tratar de duas possíveis formas de responder à PE. Primeiro, quero discutir a rejeição de Sandy Goldberg (2018, 2020) a essa tese e à tensão que ela supostamente cria com as exigências da racionalidade epistêmica. Em sua proposta, Goldberg defende o comportamento epistêmico diferencial que a PE pressupõe, mas também argumenta que tal comportamento não configura um tipo de PE, e que tampouco está em tensão com as exigências da racionalidade epistêmica. Irei sugerir que a posição de Goldberg não capta uma distinção importante entre nossas atitudes epistêmicas diante do testemunho de um amigo e diante de relatos de terceiros sobre um amigo. Particularmente, o que eu argumentarei é que o caminho que leva da valorização da amizade às razões epistêmicas em apoio aos resultados doxásticos diferenciais quando nossos amigos estão envolvidos é, na melhor das hipóteses, frágil, já que envolve o que eu vejo como um movimento não autorizado de nosso desejo de preservar uma amizade para uma reação doxástica diferencial quando alguém testemunha negativamente sobre nossos amigos. Em segundo lugar, defenderei também que não devemos aceitar a prescrição da PE tão rapidamente. Argumentarei que, ao avaliar injustamente as credenciais epistêmicas de nossos amigos – algo que parece estar acontecendo em alguns casos de parcialidade epistêmica, podemos estar contribuindo para degradar as condições de trocas epistêmicas justas em uma comunidade. Se esse for o caso, teremos uma razão pragmática para rejeitar a PE. Na primeira seção do artigo, apresentarei a tese da parcialidade epistêmica na amizade, focalizando principalmente na forma como Stroud a articula. Depois disso, na seção II, tratarei da rejeição da PE por Goldberg e apresentarei uma crítica à sua posição. Na terceira e última seção, defenderei o que vejo como uma preocupação importante se aceitarmos a PE e oferecerei uma razão pragmática para questioná-la. (shrink)

I believe that the sort of disagreements we encounter in philosophy—disagreements that often take the form that I have elsewhere called system- atic peer disagreements—make it unreasonable to think that there is any knowledge, or even justified belief, when the disagreements themselves are systematic. I readily acknowledge that this skeptical view is quite controversial; I suspect many are unconvinced. However, I will not be defending it here. Rather, I will be exploring a worry, or set of worries, that arise on (...) the assumption that this view is correct. For if it is unreasonable to think that there is justified belief in contexts of systematic philosophical disagreements, by what right do we continue to advance philosophical claims in such contexts? Indeed, by what right do we believe the philosophical claims we advance? And if we don’t believe them, why do we advance them in the first place? An inability to respond to these worries would leave us with the dis- tinct impression that the practice or activity of philosophy is quite suspect: what sort of practice or activity would have us believe unreasonably, assert unwarrantedly, and perhaps exhibit insincerity to boot? (shrink)

Some students who possess the same cognitive skill set as their counterparts but who neither speak nor write English fluently have to contend with an unnecessary barrier to academic success. While an administrative top-down approach has been in progress for many years to address this issue, enhancement of student performance begins in the classroom. Thus, we argue that instructors ought to implement a more organic bottom-up approach. If it is possible for instructors to make class content available in other languages, (...) such as Spanish, without thereby compromising something of comparable pedagogical value, then they ought to do so. In fact, we provide here Anselm’s Ontological Argument rendered in Spanish to show how, when translated, it provides native Spanish speakers with greater accessibility to difficult material. Then, we consider the possible beneficial implications of doing so for university students. (shrink)

This is a work in Kantian conceptual geography. It explores issues in analytic epistemology, philosophy of language, and metaphysics by appealing to theses drawn from Immanuel Kant's Critique of Pure Reason.

Letter commenting on the paper Barry Smith, Louis J. Goldberg, Alan Ruttenberg & Michael Glick, "Ontology and the Future of Dental Research Informatics", Journal of the American Dental Association 141 2010;(10):1173-75 with responses by the authors of the paper.

Abstract A unique aspect of human communication is the utilization of sets of well- delineated entities, the morphology of which is used to encode the letters of the alphabet. In this paper, we focus on Braille as an exemplar of this phenomenon. We take a Braille cell to be a physical artifact of the human environment, into the structure of which is encoded a representation of a letter of the alphabet. The specific issue we address in this paper concerns an (...) examination of how the code that is embedded in the structure of a Braille cell is transferred with fidelity from the environment through the body and into the Braille reader’s brain. We describe four distinct encoding steps that enable this transfer to occur. (shrink)

This dissertation investigates Plato’s prohibition on suicide at Phaedo 62b2-c9. I first lift two descriptions of death early in the text. At Phaedo 64c, Plato offers a description of physical death. A person dies physically when their body falls away from their soul. Plato goes on to offer a description of psychological death at 67c-d. A person dies psychologically when their soul has unencumbered itself from the body as much as is possible. Generally, I conclude, death is the separation of (...) the soul and body from one another. Having determined what death is for Plato, I turn to the central topic of the dissertation, Plato’s prohibition on suicide. I suggest that the suicide prohibition consists of two parts. The Enclosure Argument indicates the body is an enclosure from which we should not seek freedom so as not to defy the gods. The Guardian Argument indicates that we humans should not kill ourselves because we are enslaved to the gods. In all, the two arguments cohere insofar as they both tell against abandoning right rule. (shrink)

Happy accidents happen even in philosophy. Sometimes our arguments yield insights despite missing their target, though when they do others can often spot it more easily. Consider the work of Donald Davidson. Few did more to explore connections among mind, language, and world. Now that we have critical distance from his views, however, we can see that Davidson’s accomplishments are not quite what they seem. First, while Davidson attacked the dualism of conceptual scheme and empirical content, he in fact illustrated (...) a way to hold it. Second, while Davidson used the principle of charity to argue against the dualism, his argument in effect treats the principle as constitutive of a conceptual scheme. And third, while Davidson asserted that he cannot define what truth ultimately is—and while I do not disagree—his work nonetheless allows us to saymore about truth than Davidson himself does. -/- I aim to establish these three claims. Doing so enriches our understanding of issues central to the history of philosophy concerning how, if at all, to divvy up the mental or linguistic contribution, and the worldly contribution, to knowledge. As we see below, Davidson was right in taking his work to be one stage of a dialectic begun by Immanuel Kant.1 He was just wrong about what that stage is. Reconsidering Davidson’s views also moves the current debate forward, as they reveal a previously unrecognized yet intuitive notion of truth—even if Davidson himself remained largely unaware of it. We begin however with scheme/content dualism and Davidson’s argument against it. (shrink)

In this dissertation, I explore the work of Donald Davidson, reveal an inconsistency in it, and resolve that inconsistency in a way that complements a debate in philosophy of science. In Part One, I explicate Davidson's extensional account of meaning; though not defending Davidson from all objections, I nonetheless present his seemingly disparate views as a coherent whole. In Part Two, I explicate Davidson's views on the dualism between conceptual schemes and empirical content, isolating four seemingly different arguments that Davidson (...) makes against the dualism; I demonstrate that, though the arguments fail, each is ultimately meant to rely on his account of meaning. ;In Part Three, I show that Davidson's extensional account of meaning gives rise to the analytic-synthetic distinction, while simultaneously needing to reject it. I then propose a resolution to Davidson's dilemma. Rather than treating interpretation of meaning as continuous with the holistic enterprise of science, as Quine treats translation, one should treat it as conceptually prior to science, as Kant treats epistemology. Nonetheless I recognize four reasons why Davidson himself would reject doing so. I therefore propose a view called 'transcendental semantics', based on Davidson's, that accepts my resolution. Further, transcendental semantics, like Kant's own transcendental idealism, posits a single conceptual scheme; nonetheless Kant's is concerned with Newtonian physics, transcendental semantics' with interpretation. ;Finally, in Part Four, I show how positing such a scheme allows transcendental semantics to complement a promising neo-Carnapian account of theory confirmation in science proposed by Michael Friedman. Scientists are first and foremost interpreters, a fact that allows transcendental semantics to help Friedman establish the possibility of rational continuity through scientific revolutions. In fact, transcendental semantics, by complementing Friedman's project, reunites two of Carnap's own concerns, philosophy of language and philosophy of science. I conclude that philosophy of language without philosophy of science is empty , while philosophy of science without philosophy of language is blind. (shrink)

SNODENT is a dental diagnostic vocabulary incompletely integrated in SNOMED-CT. Nevertheless, SNODENT could become the de facto standard for dental diagnostic coding. SNODENT's manageable size, the fact that it is administratively self-contained, and relates to a well-understood domain provides valuable opportunities to formulate and test, in controlled experiments, a series of hypothesis concerning diagnostic systems. Of particular interest are questions related to establishing appropriate quality assurance methods for its optimal level of detail in content, its ontological structure, its construction and (...) maintenance. This paper builds on previous–software-based methodologies designed to assess the quality of SNOMED-CT. When applied to SNODENT several deficiencies were uncovered. 9.52% of SNODENT terms point to concepts in SNOMED-CT that have some problem. 18.53% of SNODENT terms point to SNOMED-CT concepts do not have, in SNOMED, the term used by SNODENT. Other findings include the absence of a clear specification of the exact relationship between a term and a termcode in SNODENT and the improper assignment of the same termcode to terms with significantly different meanings. An analysis of the way in which SNODENT is structurally integrated into SNOMED resulted in the generation of 1081 new termcodes reflecting entities not present in the SNOMED tables but required by SNOMED's own description logic based classification principles. Our results show that SNODENT requires considerable enhancements in content, quality of coding, quality of ontological structure and the manner in which it is integrated and aligned with SNOMED. We believe that methods for the analysis of the quality of diagnostic coding systems must be developed and employed if such systems are to be used effectively in both clinical practice and clinical research. (shrink)

Current approaches to formal representation in biomedicine are characterized by their focus on either the static or the dynamic aspects of biological reality. We here outline a theory that combines both perspectives and at the same time tackles the by no means trivial issue of their coherent integration. Our position is that a good ontology must be capable of accounting for reality both synchronically (as it exists at a time) and diachronically (as it unfolds through time), but that these are (...) two quite different tasks, whose simultaneous realization is by no means trivial. The paper is structured as follows. We begin by laying out the methodological and philosophical background of our approach. We then summarize the structure and elements of the Basic Formal Ontology on which it rests, in particular the SNAP ontology of objects and the SPAN ontology of processes. Finally, we apply the general framework to the specific domain of biomedicine. (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)

What would happen if lightning struck a tree in a swamp and transformed it into The Swampman, or if saving billions of lives required sacrificing millions first? The first is a philosophical thought experiment devised by Donald Davidson, the second a theme from a comic written by Alan Moore. I argue that that comics can be read as containing thought experiments and that such philosophical devises should be shared with students of all ages.

This article proposes a political/economic philosophy for the new millennium to replace the traditional conservative/liberal labels. It is based on the concepts of enlightened capitalism, government partnership, and informed democracy (ECGPID). The article explains these concepts and offers new ideas to move the country towards a better way of solving difficult problems and public policymaking. Article posted July 2010.

It is argued that, given certain reasonable premises, an infinite number of qualitatively identical but numerically distinct minds exist per functioning brain. The three main premises are (1) mental properties supervene on brain properties; (2) the universe is composed of particles with nonzero extension; and (3) each particle is composed of continuum-many point-sized bits of particle-stuff, and these points of particle-stuff persist through time.

This book addresses how our revisionary practices account for relations between texts and how they are read. It offers an overarching philosophy of revision concerning works of fiction, fact, and faith, revealing unexpected insights about the philosophy of language, the metaphysics of fact and fiction, and the history and philosophy of science and religion. It will be of interest to a wide range of scholars and advanced students working in philosophy of language, metaphysics, philosophy of literature, literary theory and criticism, (...) and history and philosophy of science and religion. (shrink)

We present an ontology of pain and of other pain-related phenomena, building on the definition of pain provided by the International Association for the Study of Pain (IASP). Our strategy is to identify an evolutionarily basic canonical pain phenomenon, involving unpleasant sensory and emotional experience based causally in localized tissue damage that is concordant with that experience. We then show how different variant cases of this canonical pain phenomenon can be distinguished, including pain that is elevated relative to peripheral trauma, (...) pain that is caused neuropathically (thus with no necessary peripheral stimulus), and pain reports arising through deception either of self or of others. We describe how our approach can answer some of the objections raised against the IASP definition, and sketch how it can be used to support more sophisticated discrimination of different types of pain resulting in improved data analysis that can help in advancing pain research. (shrink)

Works of science fiction tend to describe hypothetical futures, or counterfactual pasts or presents, to entertain their readers. Philosophical thought experiments tend to describe counterfactual situations to test their readers’ philosophical intuitions. Indeed, works of science fiction can sometimes be read as containing thought experiments. I compare one especially famous thought experiment from Plato’s Republic with what I read as two thought experiments from Isaac Asimov’s Foundation Trilogy. All three thought experiments concern myths used in political contexts, and comparing them (...) permits me to analyze the morality of political mythologizing. (shrink)

In this paper we address the interrelated questions of why and how certain features of an organism’s environment become meaningful to it. We make the case that knowing the biology is essential to understanding the foundation of meaning-making in organisms. We employ Miguel Nicolelis et al’s seminal research on the mammalian somatosensory system to enrich our own concept of brain-objects as the neurobiological intermediary between the environment and the consequent organismic behavior. In the final section, we explain how brain-objects advance (...) the ongoing discussion of what constitutes a biosemiotic system. In general, this paper acknowledges Marcello Barbieri’s call for biology to make room for meaning, and makes a contribution to that end. (shrink)

How do we find what is clinically significant in the swarms of data being generated by today’s diagnostic technologies? As electronic records become ever more prevalent – and digital imaging and genomic, proteomic, salivaomics, metabalomics, pharmacogenomics, phenomics and transcriptomics techniques become commonplace – fdifferent clinical and biological disciplines are facing up to the need to put their data houses in order to avoid the consequences of an uncontrolled explosion of different ways of describing information. We describe a new strategy to (...) advance the consistency of data in the dental research community. The strategy is based on the idea that existing systems for data collection in dental research will continue to be used, but proposes a methodology in which past, present and future data will be described using a consensus-based controlled structured vocabulary called the Ontology for Dental Research (ODR). (shrink)

Plato extends a bold, confident, and surprising empirical challenge. It is implicitly a claim about the psychological — more specifically motivational — economies of human beings, asserting that within each such economy there is a desire to live well. Call this claim ‘psychological eudaimonism’ (‘PE’). Further, the context makes clear that Plato thinks that this desire dominates in those who have it. In other words, the desire to live well can reliably be counted on (when accompanied with correct beliefs about (...) the role of morality or virtue in living well) to move people be virtuous. As we will argue, this general claim appears in not only Plato but Aristotle and the Stoics as well. But it is one we might wonder about, in three ways. First, we might wonder about its warrant. After all, the claim is universal in scope; yet it is about a highly contingent fact about the motivational propensities of individual human organisms, and there is abundant variability in the individual forms human nature takes. What grounds could the ancients have for their confidence that there are no outliers (assuming, as we do, that they do not merely misspeak in framing general claims as universal ones)? Second, we might wonder about its truth. For were it true, it would entail something remarkable about the nature of rationality that we (post-)moderns would be wise to heed. And third, we might wonder about its relationship with normative eudaimonism. By ‘normative eudaimonism’ (‘NE’) we mean the claim that we have conclusive reason to act in ways that conduce to our own eudaimonia. As we will show, the key to these three questions is the first. If we consider what justification the ancients have for their claim, we can see why that claim must be true. Moreover, as we will also show, it must be true because of the nature of practical rationality as the ancients understood it — that is, in terms of normative eudaimonism. We will show this by marshalling unexpected resources: Donald Davidson’s work in understanding how we interpret others and in so doing make sense of them as rational beings. If we couple Davidson’s account of interpretation with the eudaimonist structure of practical rationality essential to these ancient ethical theories, psychological eudaimonism is a consequence. The paper proceeds as follows. In Section I, we lay out the textual basis for ascribing PE to Plato, Aristotle, and the Stoics. In Section II, we introduce Davidson’s account of interpretation. This allows us to appropriate that account in Section III to the particular purposes of normative eudaimonism, to support the claim that we must ascribe the desire to live well to those whom we would see as rational. Finally, in Section IV we consider challenges to this strategy. (shrink)

Aims and objectives. Participant narratives from a feminist and queer phe- nomenological study aim to broaden current understandings of trauma. Examin- ing structural marginalisation within perinatal care relationships provides insights into the impact of dominant models of care on queer birthing women. More specifically, validation of queer experience as a key finding from the study offers trauma-informed strategies that reconstruct formerly disempowering perinatal relationships. Background. Heteronormativity governs birthing spaces and presents considerable challenges for queer birthing women who may also have (...) an increased risk of trauma due to structurally marginalising processes that create and maintain socially constructed differences. Design. Analysis of the qualitative data was guided by feminist and queer phe- nomenology. This was well suited to understanding queer women’s storied narra- tives of trauma, including disempowering processes of structural marginalisation. Methods. Semistructured and conversational interviews were conducted with a purposeful sample of thirteen queer-identified women who had experiences of birthing in rural Nova Scotia, Canada. Results. Validation was identified as meaningful for queer women in the context of perinatal care in rural Nova Scotia. Offering new perspectives on traditional models of assessment provide strategies to create a context of care that recon- structs the birthing space insofar as women at risk do not have to come out as queer in opposition to the expectation of heterosexuality. Conclusions. Normative practices were found to further the effects of structural marginalisation suggesting that perinatal care providers, including nurses, can challenge dominant models of care and reconstruct the relationality between queer women and formerly disempowering expectations of heteronormativity that govern birthing spaces. Relevance to clinical practice. New trauma-informed assessment strategies recon- struct the relationality within historically disempowering perinatal relationships through potentiating difference which avoids retraumatising women with re- experiencing the process of coming out as queer in opposition to the expectation of heterosexuality. (shrink)

People sometimes explain behavior by appealing to an essentialist concept of the self, often referred to as the true self. Existing studies suggest that people tend to believe that the true self is morally virtuous; that is deep inside, every person is motivated to behave in morally good ways. Is this belief particular to individuals with optimistic beliefs or people from Western cultures, or does it reflect a widely held cognitive bias in how people understand the self? To address this (...) question, we tested the good true self theory against two potential boundary conditions that are known to elicit different beliefs about the self as a whole. Study 1 tested whether individual differences in misanthropy—the tendency to view humans negatively—predict beliefs about the good true self in an American sample. The results indicate a consistent belief in a good true self, even among individuals who have an explicitly pessimistic view of others. Study 2 compared true self-attributions across cultural groups, by comparing samples from an independent country and a diverse set of interdependent countries. Results indicated that the direction and magnitude of the effect are comparable across all groups we tested. The belief in a good true self appears robust across groups varying in cultural orientation or misanthropy, suggesting a consistent psychological tendency to view the true self as morally good. (shrink)

In this paper we consider the logics L(i,n) obtained from the (n+1)-valued Lukasiewicz logics L(n+1) by taking the order filter generated by i/n as the set of designated elements. In particular, the conditions of maximality and strong maximality among them are analyzed. We present a very general theorem that provides sufficient conditions for maximality between logics. As a consequence of this theorem, it is shown that L(i,n) is maximal w.r.t. CPL whenever n is prime. Concerning strong maximality (i.e. maximality w.r.t. (...) rules instead of only axioms), we provide algebraic arguments in order to show that the logics L(i,n) are not strongly maximal w.r.t. CPL, even for n prime. Indeed, in such case, we show that there is just one extension between L(i,n) and CPL obtained by adding to L(i,n) a kind of graded explosion rule. Finally, using these results, we show that the logics L(i,n) with n prime and i/n < 1/2 are ideal paraconsistent logics. (shrink)

This article examines whether people share the Gettier intuition (viz. that someone who has a true justified belief that p may nonetheless fail to know that p) in 24 sites, located in 23 countries (counting Hong-Kong as a distinct country) and across 17 languages. We also consider the possible influence of gender and personality on this intuition with a very large sample size. Finally, we examine whether the Gettier intuition varies across people as a function of their disposition to engage (...) in “reflective” thinking. (shrink)

Two systems of belief change based on paraconsistent logics are introduced in this article by means of AGM-like postulates. The first one, AGMp, is defined over any paraconsistent logic which extends classical logic such that the law of excluded middle holds w.r.t. the paraconsistent negation. The second one, AGMo , is specifically designed for paraconsistent logics known as Logics of Formal Inconsistency (LFIs), which have a formal consistency operator that allows to recover all the classical inferences. Besides the three usual (...) operations over belief sets, namely expansion, contraction and revision (which is obtained from contraction by the Levi identity), the underlying paraconsistent logic allows us to define additional operations involving (non-explosive) contradictions. Thus, it is defined external revision (which is obtained from contraction by the reverse Levi identity), consolidation and semi-revision, all of them over belief sets. It is worth noting that the latter operations, introduced by S. Hansson, involve the temporary acceptance of contradictory beliefs, and so they were originally defined only for belief bases. Unlike to previous proposals in the literature, only defined for specific paraconsistent logics, the present approach can be applied to a general class of paraconsistent logics which are supraclassical, thus preserving the spirit of AGM. Moreover, representation theorems w.r.t. constructions based on selection functions are obtained for all the operations. (shrink)

In 2035 global egg demand will have risen 50% from 1985. Because we are not able to tell in the egg whether it will become a male or female chick, billons of one day-old male chicks will be killed. International research initiatives are underway in this area, and governments encourage the development of an alternative with the goal of eliminating the culling of day-old male chicks. The Netherlands holds an exceptional position in the European egg trade, but is also the (...) only country in the European Union where the downside of the egg sector, the practice of killing day-old male chicks, is a recurrent subject of societal debate. ‘Preventing the killing of young animals’ and ‘in ovo sex determination’ are the two alternative approaches available to solve this problem. It is clear that both approaches solve the problem of killing day-old male chicks, either by keeping them alive or by preventing them from living, but they also raise a lot of new animal welfare-related dilemmas. A thorough analysis was undertaken of these dilemmas and the results are presented in this article. The analysis resulted in an ethical framework based on the two main approaches in bioethics: a consequentialist approach and a deontological approach. This ethical framework was used to develop an online survey administered to ascertain Dutch public opinion about these alternative approaches. The results show that neither alternative will be fully accepted, or accepted by more than half of Dutch society. However, the survey does provide an insight into the motives that are important for people’s choice: food safety and a good treatment of animals. Irrespective of the approach chosen, these values should be safeguarded and communicated clearly. (shrink)

This article aims to clarify how aspects of current chemical understanding relate to some important contemporary problems of philosophy. The first section points out that the long-running philosophical debates concerning how properties stay together in substances have neglected the important topic of structure-determining closure. The second part describes several chemically-important types of closure and the third part shows how such closures ground the properties of chemical substances. The fourth section introduces current discussions of structural realism (SR) and contextual emergence: the (...) final sections reconsider the coherence of the properties of substances and concludes that recognition that structures qualify as determinants of specific outcomes—as ‘causes’ as that designation is used in Standard English—clarifies how properties stay together in chemical entities, and by analogy, how characteristics cohere in ordinary items. (shrink)

In this paper the class of Fidel-structures for the paraconsistent logic mbC is studied from the point of view of Model Theory and Category Theory. The basic point is that Fidel-structures for mbC (or mbC-structures) can be seen as first-order structures over the signature of Boolean algebras expanded by two binary predicate symbols N (for negation) and O (for the consistency connective) satisfying certain Horn sentences. This perspective allows us to consider notions and results from Model Theory in order to (...) analyze the class of mbC-structures. Thus, substructures, union of chains, direct products, direct limits, congruences and quotient structures can be analyzed under this perspective. In particular, a Birkhoff-like representation theorem for mbC-structures as subdirect poducts in terms of subdirectly irreducible mbC-structures is obtained by adapting a general result for first-order structures due to Caicedo. Moreover, a characterization of all the subdirectly irreducible mbC-structures is also given. An alternative decomposition theorem is obtained by using the notions of weak substructure and weak isomorphism considered by Fidel for Cn-structures. (shrink)

All disciplines must define their basic units and core processes. In evolutionary biology, the core process is natural selection and the basic unit of selection and adaptation is the individual. To operationalize the theory of natural selection we must count individuals, as they are the bearers of fitness. While canonical individuals have often been taken to be multicellular organisms, the hierarchy of life shows that new kinds of individuals have evolved. A variety of criteria have been used to define biological (...) individuality. Some criteria rely on the presence/absence of a particular property while others advocate an approach that reflects the process of natural selection. The plethora of approaches to classifying individuality has resulted in confusion regarding how to study individuality in a given taxon. (shrink)

Evolution's Arrow argues that evolution is directional and progressive, and that this has major consequences for humanity. Without resort to teleology, the book demonstrates that evolution moves in the direction of producing cooperative organisations of greater scale and evolvability - evolution has organised molecular processes into cells, cells into organisms, and organisms into societies. The book founds this position on a new theory of the evolution of cooperation. It shows that self-interest at the level of the genes does not prevent (...) cooperation from increasing as evolution unfolds. Evolution progresses by discovering ways to build cooperative organisations out of self-interested individuals. The book also shows that evolution itself has evolved. Evolution has progressively improved the ability of evolutionary mechanisms to discover effective adaptations. And it has produced new and better mechanisms. Evolution's Arrow uses this understanding of the direction of evolution to identify the next great steps in the evolution of life on earth - the steps that humanity must take if we are to continue to be successful in evolutionary terms. A key step for humanity is to increase the scale and evolvability of our societies, eventually forming a unified and cooperative society on the scale of the planet. We must also transform ourselves psychologically to become self-evolving organisms - organisms that are able to escape their biological and cultural past by adapting in whatever directions are necessary to achieve future evolutionary success. (shrink)

Objective: There are benefits and risks of giving patients more granular control of their personal health information in electronic health record (EHR) systems. When designing EHR systems and policies, informaticists and system developers must balance these benefits and risks. Ethical considerations should be an explicit part of this balancing. Our objective was to develop a structured ethics framework to accomplish this. -/- Methods: We reviewed existing literature on the ethical and policy issues, developed an ethics framework called a “Points to (...) Consider” (P2C) document, and convened a national expert panel to review and critique the P2C. -/- Results: We developed the P2C to aid informaticists designing an advanced query tool for an electronic health record (EHR) system in Indianapolis. The P2C consists of six questions (“Points”) that frame important ethical issues, apply accepted principles of bioethics and Fair Information Practices, comment on how questions might be answered, and address implications for patient care. -/- Discussion: The P2C is intended to clarify whatis at stake when designers try to accommodate potentially competing ethical commitments and logistical realities. The P2C was developed to guide informaticists who were designing a query tool in an existing EHR that would permit patient granular control. While consideration of ethical issues is coming to the forefront of medical informatics design and development practices, more reflection is needed to facilitate optimal collaboration between designers and ethicists. This report contributes to that discussion. (shrink)

Human nature has always been a foundational issue for philosophy. What does it mean to have a human nature? Is the concept the relic of a bygone age? What is the use of such a concept? What are the epistemic and ontological commitments people make when they use the concept? In What’s Left of Human Nature? Maria Kronfeldner offers a philosophical account of human nature that defends the concept against contemporary criticism. In particular, she takes on challenges related to social (...) misuse of the concept that dehumanizes those regarded as lacking human nature (the dehumanization challenge); the conflict between Darwinian thinking and essentialist concepts of human nature (the Darwinian challenge); and the consensus that evolution, heredity, and ontogenetic development results from nurture and nature. After answering each of these challenges, Kronfeldner presents a revisionist account of human nature that minimizes dehumanization and does not fall back on outdated biological ideas. Her account is post-essentialist because it eliminates the concept of an essence of being human; pluralist in that it argues that there are different things in the world that correspond to three different post-essentialist concepts of human nature; and interactive because it understands nature and nurture as interacting at the developmental, epigenetic, and evolutionary levels. On the basis of this, she introduces a dialectical concept of an ever-changing and “looping” human nature. Finally, noting the essentially contested character of the concept and the ambiguity and redundancy of the terminology, she wonders if we should simply eliminate the term “human nature” altogether. (shrink)

Initial responses to questionnaires used to assess participants' understanding of informed consent for malaria vaccine trials conducted in the United States and Mali were tallied. Total scores were analyzed by age, sex, literacy (if known), and location. Ninety-two percent (92%) of answers by United States participants and 85% of answers by Malian participants were correct. Questions more likely to be answered incorrectly in Mali related to risk, and to the type of vaccine. For adult participants, independent predictors of higher scores (...) were younger age and female sex in the United States, and male sex in Mali. Scores in the United States were higher than in Mali (P = 0.005). Despite this difference participants at both sites were well informed overall. Although interpretation must be qualified because questionnaires were not intended as research tools and were not standardized among sites, these results do not support concerns about systematic low understanding among research participants in developing versus developed countries. (shrink)

Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across many key fields in biology, including genomics, systems biology, development, medicine, evolution, ecology, and systematics. Here we survey the current phenomics landscape, including data resources and handling, and the progress that (...) has been made to accurately capture relevant data descriptions for phenotypes. We present an example of the kind of integration across domains that computable phenotypes would enable, and we call upon the broader biology community, publishers, and relevant funding agencies to support efforts to surmount today's data barriers and facilitate analytical reproducibility. (shrink)

Research studies increasingly use genomic sequencing to draw inferences based on comparisons between the genetic data of a set of purportedly related individuals. As use of this method progresses, it will become much more common to discover that the assumed biological relationships between the individuals are mistaken. Consequently, researchers will have to grapple with decisions about whether to return incidental findings of misattributed parentage on a much larger scale than ever before. In this paper we provide an extended argument for (...) the view that the default position for researchers ought to be the non-disclosure of misattributed parentage. (shrink)

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 (...) a set of common naming conventions is an achievable goal, particularly if those conventions are based on lessons drawn from pooled practical experience and surveys of community opinion. We summarize a review of existing naming conventions and highlight certain disadvantages with respect to general applicability in the biological domain. We also present the results of a survey carried out to establish which naming conventions are currently employed by OBO Foundry ontologies and to determine what their special requirements regarding the naming of entities might be. Lastly, we propose an initial set of typographic, syntactic and semantic conventions for labelling classes in OBO Foundry ontologies. Adherence to common naming conventions is more than just a matter of aesthetics. Such conventions provide guidance to ontology creators, help developers avoid flaws and inaccuracies when editing, and especially when interlinking, ontologies. Common naming conventions will also assist consumers of ontologies to more readily understand what meanings were intended by the authors of ontologies used in annotating bodies of data. (shrink)

Wittgenstein’s concepts shed light on the phenomenon of schizophrenia in at least three different ways: with a view to empathy, scientific explanation, or philosophical clarification. I consider two different “positive” wittgensteinian accounts―Campbell’s idea that delusions involve a mechanism of which different framework propositions are parts, Sass’ proposal that the schizophrenic patient can be described as a solipsist, and a Rhodes’ and Gipp’s account, where epistemic aspects of schizophrenia are explained as failures in the ordinary background of certainties. I argue that (...) none of them amounts to empathic-phenomenological understanding, but they provide examples of how philosophical concepts can contribute to scientific explanation, and to philosophical clarification respectively. (shrink)

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 (...) dendritic cell ontology (DC-CL). DC-CL subtypes are delineated on the basis of surface protein expression, systematically including both species-general and species-specific types and optimizing DC-CL for the analysis of flow cytometry data. This approach brings benefits in the form of increased accuracy, support for reasoning, and interoperability with other ontology resources. 104. Barry Smith, “Toward a Realistic Science of Environments”, Ecological Psychology, 2009, 21 (2), April-June, 121-130. Abstract: The perceptual psychologist J. J. Gibson embraces a radically externalistic view of mind and action. We have, for Gibson, not a Cartesian mind or soul, with its interior theater of contents and the consequent problem of explaining how this mind or soul and its psychological environment can succeed in grasping physical objects external to itself. Rather, we have a perceiving, acting organism, whose perceptions and actions are always already tuned to the parts and moments, the things and surfaces, of its external environment. We describe how on this basis Gibson sought to develop a realist science of environments which will be ‘consistent with physics, mechanics, optics, acoustics, and chemistry’. (shrink)

The role of imagination in Descartes. The critic of Sartre to the concept of image in Descartes.