When a widely reused ontology appears in a new version which is not compatible with older versions, the ontologies reusing it need to be updated accordingly. Ontobull has been developed to automatically update ontologies with new term IRI(s) and associated metadata to take account of such version changes. To use the Ontobull web interface a user is required to (i) upload one or more ontology OWL source files; (ii) input an ontology term IRI mapping; and (where needed) (iii) provide update (...) settings for ontology headers and XML namespace IDs. Using this information, the backend Ontobull Java program automatically updates the OWL ontology files with desired term IRIs and ontology metadata. The Ontobull subprogram BFOConvert supports the conversion of an ontology that imports a previous version of BFO. A use case is provided to demonstrate the features of Ontobull and BFOConvert. (shrink)

Current COVID-19 pandemic and previous SARS/MERS outbreaks have caused a series of major crises to global public health. We must integrate the large and exponentially growing amount of heterogeneous coronavirus data to better understand coronaviruses and associated disease mechanisms, in the interest of developing effective and safe vaccines and drugs. Ontologies have emerged to play an important role in standard knowledge and data representation, integration, sharing, and analysis. We have initiated the development of the community-based Coronavirus Infectious Disease Ontology (CIDO). (...) As an Open Biomedical Ontology (OBO) library ontology, CIDO is an open source and interoperable with other existing OBO ontologies. In this article, the general architecture and the design patterns of the CIDO are introduced, CIDO representation of coronaviruses, phenotypes, anti-coronavirus drugs and medical devices (e.g. ventilators) are illustrated, and an application of CIDO implemented to identify repurposable drug candidates for effective and safe COVID-19 treatment is presented. (shrink)

COVID-19 often manifests with different outcomes in different patients, highlighting the complexity of the host-pathogen interactions involved in manifestations of the disease at the molecular and cellular levels. In this paper, we propose a set of postulates and a framework for systematically understanding complex molecular host-pathogen interaction networks. Specifically, we first propose four host-pathogen interaction (HPI) postulates as the basis for understanding molecular and cellular host-pathogen interactions and their relations to disease outcomes. These four postulates cover the evolutionary dispositions involved (...) in HPIs, the dynamic nature of HPI outcomes, roles that HPI components may occupy leading to such outcomes, and HPI checkpoints that are critical for specific disease outcomes. Based on these postulates, an HPI Postulate and Ontology (HPIPO) framework is proposed to apply interoperable ontologies to systematically model and represent various granular details and knowledge within the scope of the HPI postulates, in a way that will support AI-ready data standardization, sharing, integration, and analysis. As a demonstration, the HPI postulates and the HPIPO framework were applied to study COVID-19 with the Coronavirus Infectious Disease Ontology (CIDO), leading to a novel approach to rational design of drug/vaccine cocktails aimed at interrupting processes occurring at critical host-coronavirus interaction checkpoints. Furthermore, the host-coronavirus protein-protein interactions (PPIs) relevant to COVID-19 were predicted and evaluated based on prior knowledge of curated PPIs and domain-domain interactions, and how such studies can be further explored with the HPI postulates and the HPIPO framework is discussed. (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)

Ontologies, as the term is used in informatics, are structured vocabularies comprised of human- and computer-interpretable terms and relations that represent entities and relationships. Within informatics fields, ontologies play an important role in knowledge and data standardization, representation, integra- tion, sharing and analysis. They have also become a foundation of artificial intelligence (AI) research. In what follows, we outline the Coronavirus Infectious Disease Ontology (CIDO), which covers multiple areas in the domain of coronavirus diseases, including etiology, transmission, epidemiology, pathogenesis, diagnosis, (...) prevention, and treatment. We emphasize CIDO development relevant to COVID-19. (shrink)

Moral distress has been characterised as one of the main ethical problems affecting nurses in all health systems, and has been depicted as a threat to nurses’ integrity and to the quality of patient care. In recent years, several studies tried to investigate moral distress, its causes and consequences for health professionals, clients and organisations. However, such studies are considered controversial and vulnerable, mainly because they lack a solid philosophical and empirical basis. The present article aimed at elaborating a theoretical (...) model for moral distress, considering the process of moral deliberation, spaces of power and resistance and patient advocacy, and sought to carry out a reflection that culminated with the creation of a broader concept of moral distress. (shrink)

I review and challenge the views on simplicity and its role in linguistics put forward by Ludlow. In particular, I criticize the claim that simplicity—in the sense pertinent to science—is nothing more than ease of use or “user-friendliness”, motivated by economy of labor. I argue that Ludlow’s discussion fails to do justice to the diversity of factors that are relevant to simplicity considerations. This, in turn, leads to the neglect of crucial cases in which the rationale for simplification is unmistakably (...) epistemic, as well as instances where simplicity is part of the content of substantive, empirical hypotheses. I illustrate these points with examples from the history of generative linguistics, such as: the shaping influence exerted by simplicity, via its involvement in the notion of “linguistically significant generalization”, its methodological and substantive contribution to the goal of explanatory adequacy, and its central role in the Minimalist Program’s search “beyond explanatory adequacy”. (shrink)

In this paper I defend the “Standard View” of the semantics of ‘I’—according to which ‘I’ is a pure, automatic indexical—from a challenge posed by “deferred reference” cases, in which occurrences of ‘I’ are (allegedly) not speaker-referential, and thus non-automatic. In reply, I offer an alternative account of the cases in question, which I call the “Description Analysis” (DA). According to DA, seemingly deferred-referential occurrences of the first person pronoun are interpreted as constituents of a definite description, whose operator scopes (...) over an open sentence Rxy—where R is a contextually selected relation ranging over pairs of people and objects. The role of intentions is thus limited to the determination of R, which is posterior to the fixation of the reference of ‘I’. In support of the DA I present evidence that, in the cases in question, the (Determiner) phrase containing ‘I’ behaves in relevant ways like a description. I show that the DA can account for the problematic examples, while preserving the simplicity of the standard semantics of ‘I’. Finally, I examine a rival account of the data, offered by Nunberg (Linguist Philos 16:1–43, 1993), and argue for the superiority of the DA. (shrink)

The aim of this paper is to provide an approach to the etho-aesthetic dimension in Marcuse’s thought. The approach in this paper is built upon the following thesis: the etho-aesthetic dimension consists of the transformation of subjectivity based on artistic sensitivity and critical rationality from which social relations opposed to an advanced industrial society and its one-dimensional man are reconstructed materially and intellectually. The conclusion is the following: a Marcusian critical theory, inherited from Marx and Schiller, would be one capable (...) of analyzing the potential qualitative changes of the subjects and social institutions to generate a higher level of rational development, equitable in the distribution of resources and in the generation of greater spaces of freedom. Its basis would be an etho-aesthetic attitude that does not take pleasure in squandering, but in the reflective experience of the sensible. (shrink)

O presente artigo tem por objetivo destacar a importância da felicidade dentro do sistema moral kantiano, mesmo que ela esteja baseada nos sentimentos de prazer e desprazer, ou seja, proveniente da ordem empírica. Para isso, faz-se necessário diferenciar deveres diretos de deveres indiretos, ou seja, os primeiros como deveres perfeitos que são obrigatórios e necessários, e os últimos como imperfeitos, que dizem respeito simplesmente àquilo que é bom que se faça, por isso são altamente recomendáveis. Os deveres indiretos ou imperfeitos, (...) que nada mais são do que deveres de virtude, somente tendem a acrescentar à qualificação moral. O dever indireto de promover a felicidade coloca-se, na filosofia prática de Kant, como um meio para a moralidade, visto que a falta de felicidade pode apresentar-se como um obstáculo à prática moral e não o contrário. (shrink)

As tentativas de invasões germânicas iniciadas no século II a.C. culminaram com a tomada de Roma em 476. Os novos chefes adotaram o latim como língua oficial, e grande parte dos textos latino-germânicos foi reunida e publicada por G.H.Pertz (MGH).

Proponho comparar e aproximar as fundamentações normativas para o socialismo de Axel Honneth e John Rawls. Parto, para tanto, de alguns traços da teoria de Honneth desenvolvidos em seu escrito sobre socialismo e dos próprios contrastes estabelecidos por ele frente ao projeto de Rawls. Destrincho a comparação em duas frentes: a primeira, tratando do conteúdo normativo das noções de liberdade de ambos os autores, a segunda, tratando do que Honneth e outros autores da tradição da teoria crítica chamam de base (...) social ou imanente das teorias. Da primeira, concluo que o contraste estabelecido por Honneth entre o seu ideal de liberdade social e o ideal de liberdade encontrado na filosofia política de Rawls não encontra respaldo em uma análise acurada da proposta rawlsiana, e que a filosofia de Rawls também pode fornecer uma normatividade crítica para o Socialismo. Da segunda, concluo, a despeito da crítica de Honneth de que haveria uma deficiência ‘prático-política’ na filosofia de Rawls, que é possível encontrar na obra deste, de uma forma mais ou menos similar àquela do autor alemão, os três elementos que Honneth julga serem necessários para uma teoria crítica que não queira ser apenas uma crítica ‘puramente normativa’ da sociedade. (shrink)

This article deals with the cognitive relationship between a speaker and her internal grammar. In particular, it takes issue with the view that such a relationship is one of belief or knowledge (I call this view the ‘Propositional Attitude View’, or PAV). I first argue that PAV entails that all ordinary speakers (tacitly) possess technical concepts belonging to syntactic theory, and second, that most ordinary speakers do not in fact possess such concepts. Thus, it is concluded that speakers do not (...) literally ‘know’ or ‘believe’ much of the contents of their grammars, and moreover, that these contents can only be attributed at a subpersonal level. (shrink)

Ethical issues flow from and are embedded in contexts of practice. Contexts of practice refer to the diverse social settings where interventions occur. Primary prevention activities require new professional roles in these diverse social settings. These new roles engage the professional in new activities, which in mm allow new ethical issues to arise. This article takes an ecological perspective on ethical issues arising from the enactment of new preventive roles intended to affect groups or communities. Within this perspective, the concepts (...) of context and culture take on special conceptual significance. Four ecological assumptions about preventive interventions intended to affect groups or communities are offered as a means of framing ethical issues in such interventions. Finally, several approaches to developing ecological knowledge about the contexts of practice are presented as ways of furthering our ability to conceptualize and cope with ethical issues in preventive interventions intended to affect groups or communities. (shrink)

Según la Propositional Attitude View (PAV), un hablante es competente en su idioma en virtud de poseer actitudes proposicionales cuyo contenido es su gramática interna. En este artículo desarrollo una objeción a PAV, llamada �el reto de la integración�, originalmente propuesto por Stich (1978) y Evans (1981), y que está constituido por dos premisas: (1) las actitudes proposicionales se caracterizan por su integración inferencial, y (2) los estados que contienen información gramatical no están inferencialmente integrados. En este artículo considero y (...) rechazo las respuestas a este argumento formuladas por Dwyer y Pietroski (1996), Higginbotham (1987) y Knowles (2000). (shrink)

Este trabalho busca discutir, a partir de dados obtidos em trabalho de campo etnográfico coletivo multissituado, elementos de uma cultura comunicacional dos torcedores no Brasil. Tradicionalmente tratados como coletivo, massa, povo ou multidão pelos meios de comunicação tradicionais, a abordagem proposta evidencia, nas falas dos próprios torcedores, uma compreensão sofisticada do universo afetivo, familiar, econômico e político que envolve o torcer por uma equipe de futebol no Brasil contemporâneo.

Abstrak: Filsafat telah memiliki perjalanan panjang dalam hubungannya dengan Kristianitas. Sumbangan filsafat untuk Kristianitas begitu banyak terutama dalam kaitannya dengan teologi. Tulisan ini meneliti soal integrasi filsafat dalam Kristianitas yang selama ini sering diperdebatkan. Periode apologi yang dimulai pada awal abad kedua sampai dengan pertengahan abad ketiga Masehi, memberikan suatu penjelasan konkrit untuk permasalahan ini. Melalui para apologet, yang sebelumnya adalah filsuf, bahkan mampu melangkah lebih jauh dalam penemuan kebijaksanaan yang sesungguhnya yang merupakan obyek dan tujuan filsafat. Bahkan mereka sampai (...) pada suatu pemikiran bahwa filsafat adalah ranah semai yang mempersiapkan filsafat yang sesungguhnya, yaitu Kristianitas. Berkat para apologet, filsafat menjadi bagian penting dalam Kristianitas, bukan saja di bidang teologi, tetapi juga di dalam ranah eksegese, hermeneutika dan terlebih-lebih di dalam hidup. Penulis Kristiani setelah periode apologi mengintegrasikan filsafat dalam tulisan dan di dalam rumusan iman. Berbagai terminologi filosofis yang diintegrasikan ke Kristianitas belum tergantikan sampai dengan saat ini. Kata-kata Kunci: Filsafat, filsuf, teologi, apologi, apologet, kebijaksanaan. Abstract: Philosophy is having a long journey in its relationship with Christianity. There is much influence of philosophy on Christian thinking, but especially on theology. This article researches the integrity of philosophy within Christianity, an integral relationship which has always been debated. During the period of the Apologies, which was begun at the beginning of the second century up to the middle of the third century, an important concrete solution to this debate was given. Through the Apology Fathers of the Church who previously were philosophers, had the capacity to go farther in finding real wisdom, which is the subject and the goal of all research in philosophy. They were able to reach a consideration that their philosophy was a field seed which had prepared for the real philosophy, which is Christianity. Through the apologies, philosophy created an important partnership with Christianity in the areas of theology and biblical exegeses, and even in hermeneutics and way of life. After the period of the Apology Fathers, Christian writers integrated philosophy in a certain way into their writings, even as a formula of faith. And some philosophical terminology, which was integrated into Christianity, could not be replaced after this time. Keywords: Philosophy, philosopher, theology, apology, apolog, virtue. (shrink)

Research and intervention involving primary prevention have grown dramatically in the past 10 years. However, little attention has been paid to ethical issues in primary prevention. This article proposes a framework for increasing awareness of such issues. The framework centers on explicating the contexts where prevention activities occur and the roles adopted by interventionists engaging in these activities. Several assumptions underlying primary prevention are stated, and ways of clarifying ethical issues are proposed.

Introduction -- Direct algorithms of decompositions of matrices by non-orthogonal transformations -- Direct algorithms of decompositions of matrices by orthogonal transformations -- Direct algorithms of solution of linear equations -- Iterative algorithms of solution of linear equations -- Direct algorithms of solution of eigenvalue problem -- Iterative algorithms of solution of eigenvalue problem -- Algorithms of solution of singular value decomposition.

The increasing passengerization of transportation through shared ride services and driverless vehicles has the potential to vastly change the transportation system. Although values are sometimes considered in the design of information tools and through attitudes toward travel, the systematic approach of value sensitive design should be used in the design of transportation infrastructure to create a sustainable transportation future.

This article provides information about Berne's financial situation at the time the Economic Society was founded. The canton was in an exceptionally fortunate position, having accumulated a sizeable cash reserve that was in part used for loans and investments on the London capital market. Throughout the century, the Bernese government followed a very cautious investment strategy. The main reason for purchasing overseas securities was that they helped the patricians to become independent from tax-paying subjects. Economic imperatives ruled out increases of (...) the cash reserve or further involvement in the overcrowded domestic capital market. However, by investing abroad Berne became increasingly dependent on the goodwill of its debtors, for which it was criticised by the Economic Patriots amongst others. (shrink)

Although many scholars take parsimony for granted today, Elliott Sober shows in his latest book, Ockham’s Razors, that they might not be rationally justified to do so. In particular, he claims that the famous Ockham’s Razor, the heuristic that says one should not postulate more entities than necessary, rests on some implicit assumptions that go back to Newton and his rules of reasoning. The problem is that Newton justified those basic rules on theological grounds, that is, the world is parsimonious (...) because God is orderly. All is not lost : Sober suggests that two contemporary perspectives from probability theory do justify parsimony. The first one is related to Bayesianism, and the fact that Ockham’s Razor is embedded in Bayes’ theorem. Sober criticizes this view and argues for an alternative, one in which predictive accuracy is more fundamental. I suggest that Sober might be right about the unseen role of predictive accuracy, but that this does not entail that Bayesians should adhere to Sober’s framework. It is my contention that Sober’s case against Bayesian model selection has more to do with the Bayesian worldview than the methodology per se. (shrink)

Esta reflexión pretende visualizar algunos elementos y características de lo que se ha nombrado actualmente como el agotamiento de la racionalidad constitutiva de lo que fue conocido como “el proyecto político de la modernidad”. Para el caso latinoamericano, la institucionalidad política, acuñada al sistema democrático de occidente, en lugar de ser solución termina agudizando el contexto de dominación e injusticia. Al presente, “las repúblicas democráticas”, en la región latinoamericana, no han sido los espacios esperados de trámite de las contradicciones del (...) propio sistema. El siguiente argumento, en perspectiva crítica, intenta aportar al actual debate político nombrando algunos desafíos para las teorías políticas que buscan superar el pensamiento único, hoy reducido al economicismo hegemónico que hace ilegítimo el estado, en la búsqueda de otros proyectos de sociedad para el siglo XXI. (shrink)

El presente trabajo propone la negación del ser como punto de partida para el reconocimiento del Otro. En su desarrollo el autor define qué es Ontología y resume su historia; explica la ambigüedad y equivocidad que los vocablos ser y Ontología tienen en la actualidad; denuncia la incompatibilidad de las respuestas de la Ontología tradicional ante el cambio de paradigmas; sostiene que una “Ontología” de la educación debe realizar una reflexión sobre los actos educativos concretos, abandonando la abstracta reflexión sobre (...) el ser y centrándola en la reflexión sobre el Otro. (shrink)

El artículo reflexiona sobre el papel del lenguaje educativo en una metafísica no ontológica. En la primera parte, se realiza un recorrido histórico en el que, luego de recordar las diversas posiciones de los filósofos acerca del lenguaje, el autor lo señala como condición indispensable para entrar en relación con el Otro. En la segunda parte, se recuerda que el docente puede servirse del lenguaje como medio de dominación o de apertura: en el primer caso, el docente busca una relación (...) asimétrica que conduce al dominio de los estudiantes; en el segundo, el docente enfatiza la dimensión de reconocimiento y de respeto del Otro. En la tercera parte, se discute si el lenguaje puede ser considerado como categoría metafísica, dentro de un paradigma metafísico no ontológico. La respuesta a esta pregunta es afirmativa, pues es el único medio y canal que permite la relación con el Otro. (shrink)

According to Julia Kristeva, creator of the term «intertextuality» in 1967, all text appears as a mosaic of quotations. That indicates a reciprocal relationship and dependence between different texts/authors, so that several texts form the basis for a new one and so on. Since then there have been numerous studies and applications of intertextuality, especially in literary field. Systematic application of the method of intertextual analysis of philosophical texts are unknown. This article provides a brief theoretical discussion of intertextual analysis (...) and then makes its application to selected texts by Martha Nussbaum, Max Horkheimer and Luitzen Brouwer. (shrink)

Metafísica sin ontología es un proyecto de Filosofía teorética que desea colocar las bases para la construcción de un edificio metafísico no ontológico. Para lograr este objetivo se utilizarán nociones propias de la epistemología contemporánea, como revoluciones científicas y paradigmas, «adaptadas» a contexto metafísico. A partir de ellas, se pregunta si es posible hablar de revoluciones filosóficas y si es posible hablar de paradigmas filosóficos y de paradigma ontológico. Se afirma la insostenibilidad del paradigma del ser, debido a las profundas (...) modificaciones del mundo en los últimos años; en su lugar, se propone un paradigma metafísico alejado de la seducción del ser.La metodología utilizada es la Hermenéutica Verwindung. Hermenéutica como doctrina filosófica que desea establecer la naturaleza, las características, las condiciones y los límites de toda posible comprensión de la realidad; Verwindung, como capacidad de «distorsión» del sentido original de un texto. Gracias a este procedimiento se establece la existencia del «paradigma ontológico»; luego, se declara su incapacidad para responder a los interrogantes del hombre de hoy; finalmente, se establecen las bases para una nueva edificación metafísica no dependiente del paradigma ontológico. (shrink)

El presente artículo desea discutir la pertinencia de las cuestiones hasta ahora planteadas por la filosofía de la educación e indagar acerca de sus pre-requisitos epistemológicos. Para ello, una vez que el autor ha definido el núcleo antropológico del que, a su juicio, emerge la filosofía de la educación y su origen etimológico, presenta la urgencia de una definición de su objeto de estudio y de su problema central como parte de su propia fundamentación epistemológica. Su objeto material es señalado (...) en el ser humano en cuanto ente educable; y su objeto formal, en la educación. Finalmente, concluye fijando el problema central de la filosofía de la educación en la educación del ser humano, en cuanto ente educable. (shrink)

In the following chanters, the Baba Creole Malay Language of the Babas of Melaka will be studied under three areas. The first is its nature and origin as a creole language, that is its historical background and its general characteristics.

Dans l’histoire de la philosophie, Descartes est considéré comme un intellectualiste, c’est-à-dire comme un théoricien qui considère que la raison est souveraine dans l’action. Il soutient donc qu’il suffit de bien juger pour bien faire, et il reprend à son compte la thèse socratique selon laquelle nul ne commet le mal volontairement.

This book begins with the question 'Who am I?' and immediately sets off in an astonishingly original direction. Why didn't anyone before Harding think of responding to this question like this? It's so obvious, once you see it. Harding presents a new vision of our place in the universe that uses the scientific method of looking to see what is true. It turns out that the truth about ourselves is not only true but also very good, and breathtakingly beautiful. We (...) live in a sacred, many-layered, living universe - or rather it lives in us. Though it was completed in 1950, this book is still ahead of its time. One day it will surely be widely recognised for its greatness: its all-encompassing vision, its originality and freshness, its depth of insight, its wide-ranging knowledge, the clarity and poetry of its language, its humanity. It is a world-view not dependent on local culture or religion, but on universally verifiable facts. It is also a world-view that respects our manifest differences whilst celebrating our underlying unity - the unity not just of oneself with other people but with all of life, indeed with the whole universe. Harding died in 2007 aged 97, leaving behind him an impressive body of work. He was a highly creative person who was passionate about - he was in love with - this living universe and the immortal treasure that abides at its centre - at our centre. "A work of the highest genius." C. S. Lewis. (shrink)

En este texto se hace una aproximación a la noción de alteridad familiar, a partir del concepto de Alteridad desplegado por Emmanuel Lévinas. Con frecuencia, este autor alude a nociones de “familia”, pero no se ocupa propiamente de un concepto al que llame “alteridad familiar”. Por eso, lo que aquí se expone es una abstracción preliminar que se sostiene metodológicamente en la tradición de los estudios documentales. Disertaciones como ésta son deseables en términos de las consideraciones que pueden generar en (...) estudiosos de las ciencias sociales que se ocupan de la familia, y no sólo para la Filosofía. (shrink)