An antinaturalist defense of causality of mental states. The argument is based on the properties of causal models in cognitive research. Bibliografia prac przywołanych w tekście -/- Damasio A., 1994/1999, Błąd Kartezjusza. Emocje, rozum i ludzki mózg, tłum. M. Karpiński, Poznań: Rebis. Davidson D., 1963/2001, „Actions, reasons, and causes”, w: (Davidson 2001), s. 3-19. Davidson D., 1967/2001, „Causal relations”, w: (Davidson 2001), s. 149-62. Davidson D., 1970/2001, „Mental events”, w: (Davidson 2001), s. 207-25. Davidson D., 1976/2001, „Hempel on explaining action”, (...) w: (Davidson 2001), s. 261-75. Davidson D., 2001, Essays on actions and events, Oxford: Clarendon. Farmer A., McGuffin P., Williams J., 2002, Measuring psychopathology, Oxford: Oxford University Press. Freedman D. A., Petitti D. B., 2002, „Salt, blood pressure, and public policy”, International Journal of Epidemiology, t. 31, s. 319–320. Greyson B., 2000, „Near-death experiences”, w: Varieties of anomalous experience. Examining the scientific evidence, red. E. Cardeña, S. J. Lynn i S. Krippner, Washington, DC: American Psychological Association, s. 315-52. Judycki S., 1995, Umysł i synteza, Lublin: RW KUL. Judycki S., 2000, „Transkauzalność a determinizm”, Kognitywistyka i media w edukacji, t. 3, s. 73-86. Kawalec P. 2005, „Understanding science of the new millennium”, http://philsci archive.pitt.edu/archive/00002558/ Kawalec P., 2006, Jak odkryć przyczynę? Studium z ogólnej metodologii i filozofii nauki, Lublin 2006, w przygotowaniu. Kim J., 1998/2002, Umysł w świecie fizycznym, tłum. R. Poczobut, Warszawa: IFiS PAN. Lauritzen S., 1996, Graphical models, Oxford: Clarendon. Menzies P., 2003, „The causal efficacy of mental states”, w: Physicalism and mental causation. The metaphysics of mind and action, red. S. Walter i H.-D. Heckmann, w druku. Pearl J., 2000, Causality. Models, reasoning, and inference, Cambridge: Cambridge University Press. Piłat R., 1999, Umysł jako model świata, Warszawa: IFiS PAN. Rosenbaum P., 2002, Observational studies, Nowy Jork: Springer. Sabom M., 1998, Life and death. One doctors’s fascinating account of near-death experiences, Grand Rapids: Zondervan. Spirtes P., Glymour C., Scheines R., 2000, Causation, prediction, and search, Cambridge, MA.: MIT. van Fraassen B., 1980, The scientific image, Oxford: Clarendon. van Fraassen B., 2002, The empirical stance, New Haven: Yale University Press. Woodward J., 2003, Making things happen: a theory of causal explanation, Nowy Jork: Oxford University Press. Żegleń U., 2003, Filozofia umysłu, Toruń: A. Marszałek. (shrink)

Participants in the cognitive phenomenology debate have proceeded by (a) proposing a bifurcation of theoretical options into inflationary and non-inflationary theories, and then (b) providing arguments for/against one of these theories. I suggest that this method has failed to illuminate the commonalities and differences among conscious intentional states of different types, in the absence of a theory of the structure of these states. I propose such a theory. In perception, phenomenal-intentional properties combine with somatosensory properties to form P-I property clusters (...) that serve as phenomenal modes of presentations of particulars. In imagination, somatosensory properties are replaced with phenomenal-intentional properties whose intentional objects are somatosensory properties, thus resulting in imaginative facsimiles of perceptual P-I property clusters. Such structures can then be used as phenomenal prototypes that pick out individuals and kinds. Sets of such prototypes constitute a subject’s conception of individuals and kinds. Combined with a few additional elements, these imaginative P-I property clusters serve as the building-blocks of conscious cognitive states. Different ways of carving up theoretical space classify my theory either as inflationary or as non-inflationary. I conclude that the theory is anti-inflationary in letter but inflationary in spirit. (shrink)

Derogatory terms (racist, sexist, ethnic, and homophobic epithets) are bully words with ontological force: they serve to establish and maintain a corrupt social system fuelled by distinctions designed to justify relations of dominance and subordination. No wonder they have occasioned public outcry and legal response. The inferential role analysis developed here helps move us away from thinking of the harms as being located in connotation (representing mere speaker bias) or denotation (holding that the terms fail to refer due to inaccurate (...) descriptive content). The issue is not bad attitudes or referential misfires. An inferential role semantic analysis of derogatory terms shows exactly what is at stake between those who argue that the terms should be eliminated (Absolutists) and those who claim they can be successfully rehabilitated (Reclaimers). The Reclaimer maintains, and the Absolutist denies, that certain contexts can detach the derogatory force from deeply derogatory terms. The article looks at these claims with respect to ‘nigger’ and ‘dyke,’ setting out the inferential role of each term and examining detachability potential. Explaining detachability in terms of linguistic commitments, this article also addresses the issue of whether such terms count as political discourse, and examines the implications of that issue. (shrink)

Resident microbiota do not just shape host immunity, they can also contribute to host protection against pathogens and infectious diseases. Previous reviews of the protective roles of the microbiota have focused exclusively on colonization resistance localized within a microenvironment. This review shows that the protection against pathogens also involves the mitigation of pathogenic impact without eliminating the pathogens (i.e., “disease tolerance”) and the containment of microorganisms to prevent pathogenic spread. Protective microorganisms can have an impact beyond their niche, interfering with (...) the entry, establishment, growth, and spread of pathogenic microorganisms. More fundamentally, we propose a series of conceptual clarifications in support of the idea of a “co-immunity,” where an organism is protected by both its own immune system and components of its microbiota. -/- . (shrink)

Feminists have urged women to take semantic authority. This article explains what such authority is, how it depends upon community recognition, and how it differs from privilege and from authority as usually conceived under patriarchy. Understanding its natures and limits is an important part of attaining it. Understanding the role of community explains why separatism is the logical conclusion of this project, and why separatism is valuable even to those who do not separate.

This essay takes a first step in comparative ethics by looking to Aristotle and the Aztec's conceptions of the good life. It argues that the Aztec conception of a rooted life, neltiliztli, functions for ethical purposes in a way that is like Aristotle's eudaimonia. To develop this claim, it not only shows just in what their conceptions of the good consist, but also in what way the Aztecs conceived of the virtues (in qualli, in yectli).

Angela Mendelovici’s book The Phenomenal Basis of Intentionality is a paradigm-establishing monograph within the phenomenal intentionality research program. Mendelovici argues that extant theories of intentionality that do not appeal to consciousness are both empirically and metaphysically inadequate, and a coherent, consciousness-based alternative can adequately explain (or explain away) all alleged cases of intentionality. While I count myself a fellow traveler, I discuss four choice-points where Mendelovici has taken, I believe, the wrong fork. (1) The explanatory relation that holds between intentional (...) and phenomenal properties is not identity but realization. (2) The mechanism that generates derivatively representational states is not content self-ascription but neural re-wiring. (3) The source of semantic structure within phenomenal-intentional states is not external structure and/or second-order co-instantiation but primitive phenomenal ascription. (4) The mode of presence of contents within phenomenal-intentional states is not being part of a superficial characterization, but being monadically present as an intentional object. (shrink)

This paper discusses the nature of, problems for, and benefits delivered by fictionalist strategies in metaphysics.

Brentano's philosophy of art, contained primarily in his book, Grundzuge der Ästhetik, is the result of an original theory of intrinsic value that was derived from Brentano's philosophical psychology. In his aesthetics, Brentano endeavored to find an objective ground for the value of aesthetic contemplation through his theory of the intentional objects of emotions and desires. The lack of attention Brentano's aesthetics has received is surprising, given that two of the many students Brentano influenced, Husserl (through the development of the (...) phenomenological movement) and Ehrenfels (through the development of Gestalt psychology) have had an extraordinary influence on twentieth century perceptions of art. In this paper I will attempt to redress some of this neglect by outlining Brentano's analysis of aesthetic intentions and the relationship his aesthetics bears to his overall philosophical system. (shrink)

A curious feature of Aztec philosophy is that the basic metaphysical question of the “Western” tradition cannot be formulated in their language, in Nahuatl. This did not, however, prevent the Aztecs from developing an account of 'reality', or whatever it is that might exist. The article is the first of its kind to compare the work of Aristotle on ousia (being) and the Aztecs on teotl and ometeotl. Through this analysis, it suggests that both of the Nahuatl terms are fundamental (...) for expressing the basic character of reality as process for the Aztecs. It also defends their notion as prima facia reasonable, despite its wide divergence from Aristotle's view. (shrink)

ABSTRACT Constitutive panpsychism is the doctrine that macro-level consciousness—that is, consciousness of the sort possessed by certain composite things such as humans—is built out of irreducibly mental features had by some or all of the basic physical constituents of reality. On constitutive panpsychism, changes in macro-level consciousness amount to changes in either the way that micro-conscious entities ‘bond’ or the way that micro-conscious qualities ‘blend’. I pose the ‘Selection Problem’ for constitutive panpsychism—the problem of explaining how high-level functional states of (...) the brain ‘select’ micro-conscious qualities for bonding or blending. I argue that there are no empirically plausible solutions to this problem. (shrink)

According to a traditional view, humans are superior to their non‐human terrestrial companions because they alone are “rational animals.” Although the traditional view is presupposed by our social and legal institutions, it has been called into question by modern science: Darwin himself claimed that humans differ in degree rather than in kind from animals, and recent discoveries in comparative animal cognition have seemed to confirm Darwin's assertion. Sustaining the traditional view in light of these discoveries calls out for a careful (...) comparison of the human mind with its precursors, the vertebrate mind and the mammalian mind. Psychological capacities shared across the animal kingdom are repurposed in humans, rendering humans uniquely capable of rationality. To be rational is to respond appropriately to value. Humans as such are not rational animals, but have the potential to become rational animals. This potential marks a morally relevant difference in kind between humans and non‐human animals. (shrink)

Making sense of MacKinnon’s claim that pornography silences women requires attention to the discursive and interpretive frameworks that pornography establishes and promotes. Treating pornography as a form of hate speech is promising, but also limited. A close examination of a legal case, in which pornographic images were used to sexually harass, focuses on the hate speech analogy while illustrating the broad and lasting impact of such depictions when targeted at an individual. Applying the distinction between Absolutist and Reclaimer approaches to (...) hate speech and derogatory terms, the article concludes with a discussion of the possibility of creative development of discursive practices within a context that undermines the semantic authority of members of certain groups. (shrink)

As a philosopher, psychologist, and physician, the German thinker Hermann Lotze defies classification. Working in the mid-nineteenth-century era of programmatic realism, he critically reviewed and rearranged theories and concepts in books on pathology, physiology, medical psychology, anthropology, history, aesthetics, metaphysics, logic, and religion. Leading anatomists and physiologists reworked his hypotheses about the central and autonomic nervous systems. Dozens of fin-de-siècle philosophical contemporaries emulated him, yet often without acknowledgment, precisely because he had made conjecture and refutation into a method. In spite (...) of Lotze's status as a pivotal figure in nineteenth-century intellectual thought, no complete treatment of his work exists, and certainly no effort to take account of the feminist secondary literature. Hermann Lotze: An Intellectual Biography is the first full-length historical study of Lotze's intellectual origins, scientific community, institutional context, and worldwide reception. (shrink)

Derogatory terms (racist, sexist, ethnic epithets) have long played various roles and achieved diverse ends in works of art. Focusing on basic aspects of an aesthetic object or work, this article examines the interpretive relation between point of view and content, asking how aesthetic contextualization shapes the impact of such terms. Can context, particularly aesthetic contexts, detach the derogatory force from powerful epithets and racist and sexist images? What would it be about aesthetic contexts that would make this possible? The (...) article puts into aesthetic contexts both Absolutist and Reclaimer views about the power of derogatory terms, applying an inferential role semantics, developed for language, to both words and images. The Reclaimer’s position, that derogation is a matter of pragmatics, of use, emphasizes the context-sensitivity of the term, that is matters who says it, to whom, when, where, and why. Understanding derogatory terms used as hate speech helps to make this position clear. The Absolutist’s position, that no contextual variations can detach the derogation from these deeply derogatory terms, is developed here through attention to subordinating images in pornography. The article argues that art may be able to achieve the deviant interpretations that the Reclaimer needs to undermine the derogations while maintaining sensitivity and awareness of the history of oppression. (shrink)

Recent empirical work on the concept of intentionality suggests that people’s assessments of whether an action is intentional are subject to uncertainty. Some researchers have gone so far as to claim that different people employ different concepts of intentional action. These possibilities have motivated a good deal of work in the relatively new field of experimental philosophy. The findings from this empirical research may prove to be relevant to medical ethics. In this article, we address this issue head on. We (...) first describe a study we conducted on intention ascription. Drawing on recent work in experimental philosophy, we investigated the possibility that the ascription of intentions to clinical actors in clinical settings is influenced by prior judgments about the goodness or badness of the consequences of the action in question. Our study was modeled on experimental studies in other contexts that have shown that people, when presented with a range of scenarios, are more likely to classify a side effect of an action as intended if the side effect is negative or reflects poorly on the actor than if it is positive or reflects well on the actor. We investigated whether this asymmetry in intention ascriptions was also present among physicians who were asked to ascribe intentions to clinical actors in certain well-defined clinical scenarios. After describing the study and its results, we discuss its implications for medical ethics. (shrink)

One of the deepest assumptions of Judaism and its offspring, Christianity, is that there is an important difference between human persons and everything else that exists in Creation. We alone are made in God’s image. We alone are the stewards of the earth. It is said in Genesis that we have “dominion over the fish of the sea, and over the birds of the air, and over the cattle, and over all the earth, and over every creeping thing that creeps (...) upon the earth.” It is difficult to see how a traditional theist could deny the significance of the difference between human persons and the rest of Creation. We human persons are morally and ontologically special. (shrink)

This article explores the cognitive and epistemic dimensions of a harm-centered theory of evil, as set out in Card’s The Atrocity Paradigm: A Theory of Evil. Examining testimony of both survivors and perpetrators of the 1994 Rwandan genocide helps to support, clarify, and extend Card’s view. Of particular concern are questions of recognizing evil as such, whether the demand to avoid evil sets too high a standard of control over oneself and one’s circumstances, and how to understand agency within evil (...) contexts. This article introduces the concept of ‘recognition harm’, which is an epistemic harm presupposed by and often constitutive of the kinds of intolerable harms that constitute evil, arguing that it is consistent with Card’s account. Finally, the article addresses to the application of the atrocity paradigm to chronic, enduring, systemic harms like sexism. (shrink)

Ontological emergentists about consciousness maintain that phenomenal properties are ontologically fundamental properties that are nonetheless non-basic: they emerge from reality only once the ultimate material constituents of reality (the “UPCs”) are suitable arranged. Ontological emergentism has been challenged on the grounds that it is insufficiently explanatory. In this essay, I develop the version of ontological emergentism I take to be the most explanatorily promising—the causal theory of ontological emergence—in light of four challenges: The Collaboration Problem (how do UPCs jointly manifest (...) their collective consciousness-generating power?); The Threshold Problem: (under what circumstances do UPCs jointly manifest their collective consciousness-generating power?); The Subject Problem (which object is the bearer of emergent phenomenal states?); and The Specificity Problem (what determines which specific phenomenal state is generated?) In response to these challenges, I arrive at the following picture of ontological emergence. When UPCs that are parts of a suitably complex sensorimotor system become entangled, they jointly manifest a subject-forming power (where subjects are deeply unified composites of the UPCs responsible for generating them). The emergent subjects thereby formed exhibit a novel causal power: the power to generate phenomenal states, which they themselves instantiate: states that “interpret” what is going on in the brain. (shrink)

It is intuitive that free action depends on consciousness in some way, since behavior that is unconsciously generated is widely regarded as un-free. But there is no clear consensus as to what such dependence comes to, in part because there is no clear consensus about either the cognitive role of consciousness or about the essential components of free action. I divide the space of possible views into four: the Constitution View (on which free actions metaphysically consist, at least in part, (...) in phenomenally conscious episodes of a special sort), the Causal-Dependence View (on which free actions are necessarily caused by conscious episodes), the Counterfactaul-Dependence View (on which free actions necessarily counterfactually dependent on conscious episodes of certain types), and the Independence View (on which there are no necessary dependence-relations that hold between free action and conscious episodes). After surveying recent empirical literature that purports to show that consciousness plays a smaller role in generating action than is usually supposed, I conclude that it is plausible that free action depends on consciousness in two ways. First, free action causally depends on consciousness control. Second, free action counterfactually depends on the agent's being responsive to certain reasons. (shrink)

In diesem Eintrag werden zwei miteinander zusammenhängende Aspekte betrachtet. Nun betreffen diese zwei Aspekte aber nicht ontologische Fragen erster Ordnung, d. h. Fragen, was es gibt. Vielmehr sind es Fragen zweiter Ordnung, ›metaontologische‹ Fragen dazu, wie philosophisch untersucht werden sollte, was es gibt. Der Fokus dieses Eintrags liegt dabei auf der Standardauffassung ontologischer Untersuchung, die die philosophische Literatur der letzten Jahre dominiert hat. Diese Auffassung haben wir zum größten Teil dem Einfluss von Willard Van Orman Quine zu verdanken.

I discuss three tiers of technological innovation: mild innovation, or the acceleration by technology of a human activity aimed at a good; moderate innovation, or the obviation by technology of an activity aimed at a good; and radical innovation, or the altering by technology of the human condition so as to change what counts as a good. I argue that it is impossible to morally assess proposed innovations within any of these three tiers unless we rehabilitate a natural-law ethical framework. (...) And I offer some moral starting points within such a framework, in connection with innovations of each of the three types. (shrink)

According to the traditional Christian understanding, being devoted to God is partly constitutive of human welfare. I explicate this tradition view, in three stages. First, I sketch a general theory of well-being which I call ‘Platonic Personalist Perfectionism.’ Second, I show how being devoted to God is uniquely perfective. I discuss three different components of the posture of devotion: abnegation (surrender of one’s will to God), adoration (responding to God’s goodness with attention, love and praise), and existential dependence (receiving one’s (...) self-worth as an unmerited gift from God). All three components of devotion are perfective in a dual way: they are salvific (they remediate a great harm) and consummative (they confer a great benefit). Third, I respond to the objection that devotion involves subjugating oneself, and thus amounts to an all-things-considered harm, notwithstanding whatever benefits it confers. I argue that so long as one’s acts of abnegating, adoring, and existentially depending are acts of one’s own, then subjugation is not essential to devotion. However, devotion does diminish one if the object of one’s devotion is unsuitable. I argue that the only suitable object of devotion is the God of traditional theism. (shrink)

This study analyzes the relationship between foreign trade and economic growth in Myanmar over the period 1990-2014. It covers the annual data of GDP, Export and Import of Myanmar from 1980 to 2014. This study adopts two major methodological approaches – exploratory data analysis and descriptive analysis. For the first approach, Augmented Dickey-Fuller (ADF) unit root test and Granger causality test are used under the framework of Vector Autoregressive (VAR) model, which have almost never been studied for the Myanmar case. (...) The second approach includes the analysis of Myanmar’s foreign trade trend with descriptive statistics. The results show that foreign trade did not generate a significant effect on the economic growth of Myanmar. Rather, import growth was negatively influenced by the economic growth of Myanmar. It is found out that exports had been determined by the GDP growth. Thus, growth-driven export strategy had been applied for the period of 1990-2014. Also, there was only one causal run from export growth to import growth. The results conclude that foreign trade did not have significant impact on the economic growth of Myanmar over the period of 1990–2014. (shrink)

We introduce what we call the Emergent Model of forgiving, which is a process-based relational model conceptualizing forgiving as moral and normative repair in the wake of grave wrongs. In cases of grave wrongs, which shatter the victim’s life, the Classical Model of transactional forgiveness falls short of illuminating how genuine forgiveness can be achieved. In a climate of persistent threat and distrust, expressions of remorse, rituals and gestures of apology, and acts of reparation are unable to secure the moral (...) confidence and trust required for moral repair, much less for forgiveness. Without the rudiments of a shared moral world — a world in which, at the very least, the survivor’s violation can be collectively recognized as a violation, and her moral status and authority collectively acknowledged and respected — expressions of remorse, gestures and rituals of apology, or promises of compensation have no authority as meaningful communicative acts with reparative significance. Accordingly, we argue that repair in the wake of traumatic violence involves ‘world-building,’ which supports the ability of survivors to move from despair to hope, from radical and disabling distrust to trust and engagement, and thus from impotence to effective agency. Our Emergent Model treats forgiveness as a slowly developing outcome of a series of changes in a person’s relationship to the trauma and its aftermath, in which moral agency is regained. We argue that forgiveness after grave wrongs and world-shattering harm, when it occurs, emerges from other phenomena, such as cohabitation within a community, gestures of reconciliation, working on shared projects, the developing of trust. On this view, forgiveness is an emergent phenomenon; it entails taking and exercising normative power—coming to claim one’s own moral authority in relation to oneself, one’s assailant, and one’s community. The processes that ultimately constitute forgiving are part and parcel of normative repair more broadly construed. (shrink)

I propose to take a more proximate and micro-contextual approach to the history of cultural psychology, by focusing on the 1960s. In this historical snapshot, Jerome Bruner emerges as a consummate experimental scientist, organizer of scientific knowledge, and entrepreneur in education. Looking ahead, his work continued to evolve: from perceptual readiness and values in perception (1950s) to thinking and educational psychology (1960s). Then came developmental psychology and spiral curriculum (1970s), language as social interaction (1980s), the narrative turn to meaning (1990s), (...) and legal psychology (2000s). His scientific biography resembles a prism, refracting myriad persons and cultures in which he moved. Within that context it is possible to trace several pathways to cultural psychology. (shrink)

The study aims to determine the socio-demographic and debt profile of the public-school teachers in the Schools Division of Aklan, Philippines, their reasons on acquiring debt and perceived ways to avoid debts. This study utilized descriptive correlational research design utilizing a researcher-made instrument on socio-demographic profile, pattern of expenditures, debt profile covering the type of debts, total cost of debts, reasons for having debts and perceived ways to manage debts. The data gathered were tabulated and analyzed using the IBM Statistical (...) Package for Social Sciences (SPSS) version 26. The take-home pay of the teachers was only more than half of their gross income. Most of the spouses of the married teachers were employed but many of them have relatively lower income. Their monthly family income was higher than the reported average family income for 2022 and their expenditures are also relatively higher than the average family expenditures in provinces for 2022. Almost one-half of the income of the teachers was used to pay their debts – both thru automatic payroll deduction and thru personal transactions. The bigger the household size, the higher the expenditure because there were more needs and there were many people consuming commodities. The higher the family income, the bigger the expenditure since lifestyle often adjusts with income. Young; married teachers; those occupying higher position and longer tenure have higher cumulative debts. Increase in family expenditure could cause increase in the number of debts as linked to the Theory of Reasoned Action and Theory of Planned Behavior. High regard for education, health, and safety triggered teachers to have debts, which can only be avoided thru better money and lifestyle management and having additional source of income. (shrink)

The question of the cognitive role of fictionality is this: what is the correct cognitive attitude to take to p, when it is fictional that p? We began by considering one answer to this question, implicit in the work of Kendall Walton, that the correct response to a fictional proposition is to imagine that proposition. However, this approach is silent in cases of fictional incompleteness, where neither p nor its negation are fictional. We argue that that Waltonians should embrace a (...) pluralistic account of the cognitive role of fictional incompleteness: in some cases of fictional incompleteness, we are permitted to resolve the incompleteness during our engagement with the target fiction, and in other cases, we are obliged not to resolve the incompleteness. But though pluralism is accommodated by Walton’s wider account of fictionality, it puts tension on his motivating idea that fictionality stands to the imagination as truth stands to belief. And so we develop a rival conception of the cognitive role of fictionality that is built around a different analogy: on this evidentialist approach, (known) fictionality stands to the imagination as evidence stands to credence. (shrink)

This paper presents data on the representation of women at 98 philosophy departments in the United States, which were ranked by the Philosophical Gourmet Report (PGR) in 2015 as well as all of those schools on which data from 2004 exist. The paper makes four points in providing an overview of the state of the field. First, all programs reveal a statistically significant increase in the percentage of women tenured/tenure-track faculty, since 2004. Second, out of the 98 US philosophy departments (...) selected for evaluation by Julie Van Camp in 2004, none in 2015 has 50% women philosophy faculty overall, while one has 50% women who are tenured/tenure track. Third, as of 2015, there is a clear pyramidal shape to the discipline: Women are better represented as Assistant than Associate and as Associate than Full professors. Fourth, women philosophy faculty, especially those who are tenured/tenure track, are better represented at Non-PGR ranked programs than at PGR ranked and PGR Top-20 programs in 2015. (shrink)

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 (...) the land plants (bryophytes through angiosperms). As a case study to illustrate the general approach, we examine variation in gene expression across embryo development stages in Arabidopsis and maize, demonstrating how the PO can be used to compare patterns of expression across stages and in developmentally different species. Although many genes appear to be active throughout embryo development, we identified a small set of uniquely expressed genes for each stage of embryo development and also between the two species. Evaluating the different sets of genes expressed during embryo development in Arabidopsis or maize may inform future studies of the divergent developmental pathways observed in monocotyledonous versus dicotyledonous species. The PO and its annotation databasemake plant data for any species more discoverable and accessible through common formats, thus providing support for applications in plant pathology, image analysis, and comparative development and evolution. (shrink)

In this article, I aim to demonstrate that moral responsibility theory produces, legitimates, and even magnifies the considerable social injustice that accrues to disabled people insofar as it implicitly and explicitly promotes a depoliticized ontology of disability that construes disability as a naturally disadvantageous personal characteristic or deleterious property of individuals rather than identifies it as an effect of power, an apparatus. In particular, I argue that the methodological tools of “analytic” philosophy that philosophers of moral responsibility theory employ to (...) establish the philosophical domain in which they engage have distinctly detrimental effects on disabled people. (shrink)

In order to explain Wittgenstein’s account of the reality of completed infinity in mathematics, a brief overview of Cantor’s initial injection of the idea into set- theory, its trajectory and the philosophic implications he attributed to it will be presented. Subsequently, we will first expound Wittgenstein’s grammatical critique of the use of the term ‘infinity’ in common parlance and its conversion into a notion of an actually existing infinite ‘set’. Secondly, we will delve into Wittgenstein’s technical critique of the concept (...) of ‘denumerability’ as it is presented in set theory as well as his philosophic refutation of Cantor’s Diagonal Argument and the implications of such a refutation onto the problems of the Continuum Hypothesis and Cantor’s Theorem. Throughout, the discussion will be placed within the historical and philosophical framework of the Grundlagenkrise der Mathematik and Hilbert’s problems. (shrink)

The current COVID-19 pandemic and the previous SARS/MERS outbreaks of 2003 and 2012 have resulted in a series of major global public health crises. We argue that in the interest of developing effective and safe vaccines and drugs and to better understand coronaviruses and associated disease mechenisms it is necessary to integrate the large and exponentially growing body of heterogeneous coronavirus data. Ontologies play an important role in standard-based knowledge and data representation, integration, sharing, and analysis. Accordingly, we initiated the (...) development of the community-based Coronavirus Infectious Disease Ontology in early 2020. -/- As an Open Biomedical Ontology (OBO) library ontology, CIDO is open source and interoperable with other existing OBO ontologies. CIDO is aligned with the Basic Formal Ontology and Viral Infectious Disease Ontology. CIDO has imported terms from over 30 OBO ontologies. For example, CIDO imports all SARS-CoV-2 protein terms from the Protein Ontology, COVID-19-related phenotype terms from the Human Phenotype Ontology, and over 100 COVID-19 terms for vaccines (both authorized and in clinical trial) from the Vaccine Ontology. CIDO systematically represents variants of SARS-CoV-2 viruses and over 300 amino acid substitutions therein, along with over 300 diagnostic kits and methods. CIDO also describes hundreds of host-coronavirus protein-protein interactions (PPIs) and the drugs that target proteins in these PPIs. CIDO has been used to model COVID-19 related phenomena in areas such as epidemiology. The scope of CIDO was evaluated by visual analysis supported by a summarization network method. CIDO has been used in various applications such as term standardization, inference, natural language processing (NLP) and clinical data integration. We have applied the amino acid variant knowledge present in CIDO to analyze differences between SARS-CoV-2 Delta and Omicron variants. CIDO's integrative host-coronavirus PPIs and drug-target knowledge has also been used to support drug repurposing for COVID-19 treatment. -/- CIDO represents entities and relations in the domain of coronavirus diseases with a special focus on COVID-19. It supports shared knowledge representation, data and metadata standardization and integration, and has been used in a range of applications. (shrink)