Research has indicated that microRNAs (miRNAs), a special class of non-coding RNAs (ncRNAs), can perform important roles in different biological and pathological processes. miRNAs’ functions are realized by regulating their respective target genes (targets). It is thus critical to identify and analyze miRNA-target interactions for a better understanding and delineation of miRNAs’ functions. However, conventional knowledge discovery and acquisition methods have many limitations. Fortunately, semantic technologies that are based on domain ontologies can render great assistance in this regard. In our (...) previous investigations, we developed a miRNA domain-specific application ontology, Ontology for MIcroRNA Target (OMIT), to provide the community with common data elements and data exchange standards in the miRNA research. This paper describes (1) our continuing efforts in the OMIT ontology development and (2) the application of the OMIT to enable a semantic approach for knowledge capture of miRNA-target interactions. (shrink)

The Protein Ontology (PRO) provides a formal, logically-based classification of specific protein classes including structured representations of protein isoforms, variants and modified forms. Initially focused on proteins found in human, mouse and Escherichia coli, PRO now includes representations of protein complexes. The PRO Consortium works in concert with the developers of other biomedical ontologies and protein knowledge bases to provide the ability to formally organize and integrate representations of precise protein forms so as to enhance accessibility to results of protein (...) research. PRO (http://pir.georgetown.edu/pro) is part of the Open Biomedical Ontologies (OBO) Foundry. (shrink)

Identification of non-coding RNAs (ncRNAs) has been significantly enhanced due to the rapid advancement in sequencing technologies. On the other hand, semantic annotation of ncRNA data lag behind their identification, and there is a great need to effectively integrate discovery from relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a precisely defined ncRNA controlled vocabulary, which can fill a specific and highly needed niche in unification of ncRNA biology.

The Protein Ontology (PRO) web resource provides an integrative framework for protein-centric exploration and enables specific and precise annotation of proteins and protein complexes based on PRO. Functionalities include: browsing, searching and retrieving, terms, displaying selected terms in OBO or OWL format, and supporting URIs. In addition, the PRO website offers multiple ways for the user to request, submit, or modify terms and/or annotation. We will demonstrate the use of these tools for protein research and annotation.

The Protein Ontology (PRO; http://purl.obolibrary.org/obo/pr) formally defines and describes taxon-specific and taxon-neutral protein-related entities in three major areas: proteins related by evolution; proteins produced from a given gene; and protein-containing complexes. PRO thus serves as a tool for referencing protein entities at any level of specificity. To enhance this ability, and to facilitate the comparison of such entities described in different resources, we developed a standardized representation of proteoforms using UniProtKB as a sequence reference and PSI-MOD as a post-translational modification (...) reference. We illustrate its use in facilitating an alignment between PRO and Reactome protein entities. We also address issues of scalability, describing our first steps into the use of text mining to identify protein-related entities, the large-scale import of proteoform information from expert curated resources, and our ability to dynamically generate PRO terms. Web views for individual terms are now more informative about closely-related terms, including for example an interactive multiple sequence alignment. Finally, we describe recent improvement in semantic utility, with PRO now represented in OWL and as a SPARQL endpoint. These developments will further support the anticipated growth of PRO and facilitate discoverability of and allow aggregation of data relating to protein entities. (shrink)

Identification of non-coding RNAs (ncRNAs) has been significantly improved over the past decade. On the other hand, semantic annotation of ncRNA data is facing critical challenges due to the lack of a comprehensive ontology to serve as common data elements and data exchange standards in the field. We developed the Non-Coding RNA Ontology (NCRO) to handle this situation. By providing a formally defined ncRNA controlled vocabulary, the NCRO aims to fill a specific and highly needed niche in semantic annotation of (...) large amounts of ncRNA biological and clinical data. (shrink)

Representing species-specific proteins and protein complexes in ontologies that are both human and machine-readable facilitates the retrieval, analysis, and interpretation of genome-scale data sets. Although existing protin-centric informatics resources provide the biomedical research community with well-curated compendia of protein sequence and structure, these resources lack formal ontological representations of the relationships among the proteins themselves. The Protein Ontology (PRO) Consortium is filling this informatics resource gap by developing ontological representations and relationships among proteins and their variants and modified forms. Because (...) proteins are often functional only as members of stable protein complexes, the PRO Consortium, in collaboration with existing protein and pathway databases, has launched a new initiative to implement logical and consistent representation of protein complexes. We describe here how the PRO Consortium is meeting the challenge of representing species-specific protein complexes, how protein complex representation in PRO supports annotation of protein complexes and comparative biology, and how PRO is being integrated into existing community bioinformatics resources. The PRO resource is accessible at http://pir.georgetown.edu/pro/. (shrink)

The Protein Ontology (PRO) is designed as a formal and principled Open Biomedical Ontologies (OBO) Foundry ontology for proteins. The components of PRO extend from a classification of proteins on the basis of evolutionary relationships at the homeomorphic level to the representation of the multiple protein forms of a gene, including those resulting from alternative splicing, cleavage and/or posttranslational modifications. Focusing specifically on the TGF-beta signaling proteins, we describe the building, curation, usage and dissemination of PRO. PRO provides a framework (...) for the formal representation of protein classes and protein forms in the OBO Foundry. It is designed to enable data retrieval and integration and machine reasoning at the molecular level of proteins, thereby facilitating cross-species comparisons, pathway analysis, disease modeling and the generation of new hypotheses. (shrink)

The Protein Ontology (PRO) provides terms for and supports annotation of species-specific protein complexes in an ontology framework that relates them both to their components and to species-independent families of complexes. Comprehensive curation of experimentally known forms and annotations thereof is expected to expose discrepancies, differences, and gaps in our knowledge. We have annotated the early events of innate immune signaling mediated by Toll-Like Receptor 3 and 4 complexes in human, mouse, and chicken. The resulting ontology and annotation data set (...) has allowed us to identify species-specific gaps in experimental data and possible functional differences between species, and to employ inferred structural and functional relationships to suggest plausible resolutions of these discrepancies and gaps. (shrink)

The Protein Ontology (PRO; http://proconsortium.org) formally defines protein entities and explicitly represents their major forms and interrelations. Protein entities represented in PRO corresponding to single amino acid chains are categorized by level of specificity into family, gene, sequence and modification metaclasses, and there is a separate metaclass for protein complexes. All metaclasses also have organism-specific derivatives. PRO complements established sequence databases such as UniProtKB, and interoperates with other biomedical and biological ontologies such as the Gene Ontology (GO). PRO relates to (...) UniProtKB in that PRO’s organism-specific classes of proteins encoded by a specific gene correspond to entities documented in UniProtKB entries. PRO relates to the GO in that PRO’s representations of organism-specific protein complexes are subclasses of the organism-agnostic protein complex terms in the GO Cellular Component Ontology. The past few years have seen growth and changes to the PRO, as well as new points of access to the data and new applications of PRO in immunology and proteomics. Here we describe some of these developments. (shrink)

In recent years, sequencing technologies have enabled the identification of a wide range of non-coding RNAs (ncRNAs). Unfortunately, annotation and integration of ncRNA data has lagged behind their identification. Given the large quantity of information being obtained in this area, there emerges an urgent need to integrate what is being discovered by a broad range of relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a systematically structured and precisely defined controlled vocabulary for the (...) domain of ncRNAs, thereby facilitating the discovery, curation, analysis, exchange, and reasoning of data about structures of ncRNAs, their molecular and cellular functions, and their impacts upon phenotypes. The goal of NCRO is to serve as a common resource for annotations of diverse research in a way that will significantly enhance integrative and comparative analysis of the myriad resources currently housed in disparate sources. It is our belief that the NCRO ontology can perform an important role in the comprehensive unification of ncRNA biology and, indeed, fill a critical gap in both the Open Biological and Biomedical Ontologies (OBO) Library and the National Center for Biomedical Ontology (NCBO) BioPortal. Our initial focus is on the ontological representation of small regulatory ncRNAs, which we see as the first step in providing a resource for the annotation of data about all forms of ncRNAs. The NCRO ontology is free and open to all users, accessible at: http://purl.obolibrary.org/obo/ncro.owl. (shrink)

In recent years, sequencing technologies have enabled the identification of a wide range of non-coding RNAs (ncRNAs). Unfortunately, annotation and integration of ncRNA data has lagged behind their identification. Given the large quantity of information being obtained in this area, there emerges an urgent need to integrate what is being discovered by a broad range of relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a systematically structured and precisely defined controlled vocabulary for the (...) domain of ncRNAs, thereby facilitating the discovery, curation, analysis, exchange, and reasoning of data about structures of ncRNAs, their molecular and cellular functions, and their impacts upon phenotypes. The goal of NCRO is to serve as a common resource for annotations of diverse research in a way that will significantly enhance integrative and comparative analysis of the myriad resources currently housed in disparate sources. It is our belief that the NCRO ontology can perform an important role in the comprehensive unification of ncRNA biology and, indeed, fill a critical gap in both the Open Biological and Biomedical Ontologies (OBO) Library and the National Center for Biomedical Ontology (NCBO) BioPortal. Our initial focus is on the ontological representation of small regulatory ncRNAs, which we see as the first step in providing a resource for the annotation of data about all forms of ncRNAs. The NCRO ontology is free and open to all users, accessible at: http://purl.obolibrary.org/obo/ncro.owl. (shrink)

Carrie Jenkins (2005, 2008) has developed a theory of the a priori that she claims solves the problem of how justification regarding our concepts can give us justification regarding the world. She claims that concepts themselves can be justified, and that beliefs formed by examining such concepts can be justified a priori. I object that we can have a priori justified beliefs with unjustified concepts if those beliefs have no existential import. I then argue that only beliefs without existential import (...) can be justified a priori on the widely held conceptual approach. This limits the scope of the a priori and undermines arguments for essentialism. (shrink)

Sober and Elgin defend the claim that there are a priori causal laws in biology. Lange and Rosenberg take issue with this on Humean grounds, among others. I will argue that Sober and Elgin don’t go far enough – there are a priori causal laws in many sciences. Furthermore, I will argue that this thesis is compatible with a Humean metaphysics and an empiricist epistemology.

Sometimes we learn what the world is like, and sometimes we learn where in the world we are. Are there any interesting differences between the two kinds of cases? The main aim of this article is to argue that learning where we are in the world brings into view the same kind of observation selection effects that operate when sampling from a population. I will first explain what observation selection effects are ( Section 1 ) and how they are relevant (...) to learning where we are in the world ( Section 2 ). I will show how measurements in the Many Worlds Interpretation of quantum mechanics can be understood as learning where you are in the world via some observation selection effect ( Section 3 ). I will apply a similar argument to the Sleeping Beauty Problem ( Section 4 ) and explain what I take the significance of the analogy to be ( Section 5 ). Finally, I will defend the Restricted Principle of Indifference on which some of my arguments depend ( Section 6 ). (shrink)

Cian Dorr (2002) gives an argument for the 1/3 position in Sleeping Beauty. I argue this is based on a mistake about Sleeping Beauty's epistemic position.

I argue that epistemologists should borrow the metaphysician’s concept of naturalness and assign higher priors to more natural hypotheses.

The main argument given for relevant alternatives theories of knowledge has been that they answer scepticism about the external world. I will argue that relevant alternatives also solve two other problems that have been much discussed in recent years, a) the bootstrapping problem and b) the apparent conflict between semantic externalism and armchair self-knowledge. Furthermore, I will argue that scepticism and Mooreanism can be embedded within the relevant alternatives framework.

In this article I would like to discuss the concept of a priori mainly focusing on Kant’s Copernican revolution. How is metaphysics at all possible and how a priority takes place in Kantian metaphysics are the questions that I have addressed in the first part of my article. In this context, I have explained analytic, synthetic distinction from epistemological, metaphysical and semantical perspectives and I want to show how the concept of a priori and other associated notions are derived from (...) this different perspective. I end my discussion with an account of some fundamental objections raised by Quine and Kripke against Kantian analysis. Quine mainly wants to deny the traditional analytic and synthetic distinction. Besides, Kripke is trying to show that it is not true that the traditional account of the intimate relation between a priori and necessary proposition must be true, i.e., it is mistaken that a priori proposition must be necessary, it may be contingent. I would like to analyse and explain a few obstacles of Quine and Kripke following Putnam’s (externalist approach) and Quassim Cassam’s (non-empirical approach on a priority) line of different arguments. (shrink)

The focus of this article is the question whether the notion of being in a position to know is closed under modus ponens. The question is answered negatively.

In this paper I argue for a priori conjectural scientific knowledge about the world. Physics persistently only accepts unified theories, even though endlessly many empirically more successful disunified rivals are always available. This persistent preference for unified theories, against empirical considerations, means that physics makes a substantial, persistent metaphysical assumption, to the effect that the universe has a (more or less) unified dynamic structure. In order to clarify what this assumption amounts to, I solve the problem of what it means (...) to say of a theory that it is unified. There are, I argue, eight different kinds of unity important in theoretical physics, all varieties of one basic idea. This provides us with a precise way of partially ordering physical theories with respect to their degree of unity. It also leads to a hierarchical view of physics, according to which physics makes a number of increasingly insubstantial metaphysical assumptions concerning the comprehensibility and knowability of the universe. Two of these are identified as constituting a priori conjectures. I conclude by arguing that the view developed in the paper resolves the traditional clash between empiricism and rationalism in the philosophy of science, and has important implications for science, and for academic inquiry more generally. (shrink)

This paper proposes a view of time that takes passage to be the most basic temporal notion, instead of the usual A-theoretic and B-theoretic notions, and explores how we should think of a world that exhibits such a genuine temporal passage. It will be argued that an objective passage of time can only be made sense of from an atemporal point of view and only when it is able to constitute a genuine change of objects across time. This requires that (...) passage can flip one fact into a contrary fact, even though neither side of the temporal passage is privileged over the other. We can make sense of this if the world is inherently perspectival. Such an inherently perspectival world is characterized by fragmentalism, a view that has been introduced by Fine in his ‘Tense and Reality’ (2005). Unlike Fine's tense-theoretic fragmentalism though, the proposed view will be a fragmentalist view based in a primitive notion of passage. (shrink)

Review of Desmond M. Clarke. Descartes: A Biography. xi + 507 pp., apps., figs., bibl., index. Cambridge: Cambridge University Press, 2006. $40 (cloth).; Richard Watson, Cogito, Ergo Sum: The Life of René Descartes. viii + 375 pp., figs., bibl., index. Boston: David R. Godine, 2002. $35 (cloth).

Objective reasons are given by the facts. Subjective reasons are given by one’s perspective on the facts. Subjective reasons, not objective reasons, determine what it is rational to do. In this paper, I argue against a prominent account of subjective reasons. The problem with that account, I suggest, is that it makes what one has subjective reason to do, and hence what it is rational to do, turn on matters outside or independent of one’s perspective. After explaining and establishing this (...) point, I offer a novel account of subjective reasons which avoids the problem. (shrink)

This chapter argues that scientific and philosophical progress in our understanding of the living world requires that we abandon a metaphysics of things in favour of one centred on processes. We identify three main empirical motivations for adopting a process ontology in biology: metabolic turnover, life cycles, and ecological interdependence. We show how taking a processual stance in the philosophy of biology enables us to ground existing critiques of essentialism, reductionism, and mechanicism, all of which have traditionally been associated with (...) substance ontology. We illustrate the consequences of embracing an ontology of processes in biology by considering some of its implications for physiology, genetics, evolution, and medicine. And we attempt to locate the subsequent chapters of the book in relation to the position we defend. (shrink)

The literature acknowledges a distinction between immoral, amoral and moral management. This paper makes a case for the employee (at any level) as a moral agent, even though the paper begins by highlighting a body of evidence which suggests that individual moral agency is sacrificed at work and is compromised in deference to other pressures. This leads to a discussion about the notion of discretion and an examination of a separate, contrary body of literature which indicates that some individuals in (...) corporations may use their discretion to behave in a socially entrepreneurial manner. My underlying assumption is that CSR isn’t solely driven by economics and that it may also be championed as a result of a personal morality, inspired by employees’ own socially oriented personal values. A conceptual framework is put forward and it is suggested that individuals may be categorized as Active or Frustrated Corporate Social Entrepreneurs; Conformists or Apathetics, distinguished by their individualistic or collectivist personal values. In a discussion of the nature of values, this paper highlights how values may act as drivers of our behavior and pays particular attention to the values of the entrepreneur, thereby linking the existing debate on moral agency with the field of corporate social responsibility. (shrink)

Kant's philosophy promises to explain various synthetic a priori claims. Yet, as several of his commentators have noted, it is hard to see how these explanations could work unless they themselves rested on unexplained synthetic a priori claims. Since Kant appears to demand explanations for all synthetic a priori claims, it would seem that his project fails on its own terms. I argue, however, that Kant holds that explanations are required only for synthetic a priori claims about (purportedly) experience-independent entities, (...) and that his project rests on a rationalist method of reflection that justifies certain basic synthetic a priori claims. (shrink)

Note first that knowledge of one's own thought-contents would not count as a priori according to the usual criteria for knowledge of this kind. Surely, then, incompatibilists are using this term to refer to some other, stipulatively defined, epistemic property. But could this be, as suggested by McKinsey { 1 99 1: 9), the property of being knowable 'just by thinking' or 'from the armchair'? Certainly not if these were metaphors for knowledge attainable on the basis of reason alone, since (...) self-knowledge would fail to come out a priori in this sense. And exactly the same would happen if the property were that of being knowable by inference, since, according to a common intuition, self-knowledge is noninferential. (shrink)

On rationalist infallibilism, a wide range of both (i) analytic and (ii) synthetic a priori propositions can be infallibly justified (or absolutely warranted), i.e., justified to a degree that entails their truth and precludes their falsity. Though rationalist infallibilism is indisputably running its course, adherence to at least one of the two species of infallible a priori justification refuses to disappear from mainstream epistemology. Among others, Putnam (1978) still professes the a priori infallibility of some category (i) propositions, while Burge (...) (1986, 1988, 1996) and Lewis (1996) have recently affirmed the a priori infallibility of some category (ii) propositions. In this paper, I take aim at rationalist infallibilism by calling into question the a priori infallibility of both analytic and synthetic propositions. The upshot will be twofold: first, rationalist infallibilism unsurprisingly emerges as a defective epistemological doctrine, and second, more importantly, the case for the a priori infallibility of one or both categories of propositions turns out to lack cogency. (shrink)

The philosophical literature on state legitimacy has recently seen a significant conceptual revision. Several philosophers have argued that the state's right to rule is better characterized not as a claim right to obedience, but as a power right. There have been few attempts to show that traditional justifications for the claim right might also be used to justify a power right, and there have been no such attempts involving the principle of fair play, which is widely regarded as the most (...) promising basis for a claim right to obedience. William Edmundson argues that the principle of fair play cannot generate power rights, and so any attempt at a fair play account of legitimacy must fail. I explain how fair play could generate a power right, owing to its stipulation that the rules of a cooperative scheme specify the form of participants' repayment. (shrink)

I propose a distinct type of robustness, which I suggest can support a confirmatory role in scientific reasoning, contrary to the usual philosophical claims. In model robustness, repeated production of the empirically successful model prediction or retrodiction against a background of independentlysupported and varying model constructions, within a group of models containing a shared causal factor, may suggest how confident we can be in the causal factor and predictions/retrodictions, especially once supported by a variety of evidence framework. I present climate (...) models of greenhouse gas global warming of the 20th Century as an example, and emphasize climate scientists’ discussions of robust models and causal aspects. The account is intended as applicable to a broad array of sciences that use complex modeling techniques. (shrink)

The idea that the epistemology of modality is in some sense a priori is a popular one, but it has turned out to be difficult to precisify in a way that does not expose it to decisive counterexamples. The most common precisifications follow Kripke’s suggestion that cases of necessary a posteriori truth that can be known a priori to be necessary if true ‘may give a clue to a general characterization of a posteriori knowledge of necessary truths’. The idea is (...) that whether it is contingent whether p can be known a priori for at least some broad range of sentences ‘p’. Recently, Al Casullo and Jens Kipper have discussed restrictions of such principles to atomic sentences. We show that decisive counterexamples even to such dramatically restricted Kripke-style principles can be constructed using minimal logical resources. We then consider further restrictions, and show that the counterexamples to the original principles can be turned into counterexamples to the further restricted principles. We conclude that, if there are any true restrictions of Kripke-style principles, then they are so weak as to be of little epistemological interest. (shrink)

This paper argues that a priori justification is, in principle, compatible with naturalism—if the a priori is understood in a way that is free of the inessential properties that, historically, have been associated with the concept. I argue that empirical indefeasibility is essential to the primary notion of the a priori ; however, the indefeasibility requirement should be interpreted in such a way that we can be fallibilist about apriori-justified claims. This fallibilist notion of the a priori accords with the (...) naturalist’s commitment to scientific methodology in that it allows for apriori-justified claims to be sensitive to further conceptual developments and the expansion of evidence. The fallibilist apriorist allows that an a priori claim is revisable in only a purely epistemic sense. This modal claim is weaker than what is required for a revisability thesis to establish empiricism, so fallibilist apriorism represents a distinct position. (shrink)

Skeptical hypotheses such as the brain-in-a-vat hypothesis provide extremely poor explanations for our sensory experiences. Because these scenarios accommodate virtually any possible set of evidence, the probability of any given set of evidence on the skeptical scenario is near zero; hence, on Bayesian grounds, the scenario is not well supported by the evidence. By contrast, serious theories make reasonably specific predictions about the evidence and are then well supported when these predictions are satisfied.

This paper assesses branching spacetime theories in light of metaphysical considerations concerning time. I present the A, B, and C series in terms of the temporal structure they impose on sets of events, and raise problems for two elements of extant branching spacetime theories—McCall’s ‘branch attrition’, and the ‘no backward branching’ feature of Belnap’s ‘branching space-time’—in terms of their respective A- and B-theoretic nature. I argue that McCall’s presentation of branch attrition can only be coherently formulated on a model with (...) at least two temporal dimensions, and that this results in severing the link between branch attrition and the flow of time. I argue that ‘no backward branching’ prohibits Belnap’s theory from capturing the modal content of indeterministic physical theories, and results in it ascribing to the world a time-asymmetric modal structure that lacks physical justification. (shrink)

According to Kant, it is impermissible to treat humanity as a mere means. If we accept Kant's equation of humanity with rational agency, and are literalists about ascriptions of agency to collectives it appears to follow that we may not treat collectives as mere means. On most standard accounts of what it is to treat something as a means this conclusion seems highly implausible. I conclude that we are faced with a range of options. One would be to rethink the (...) equation of humanity with rationality. Another would be to abandon the prohibition on treating as a means. The last would be to abandon literalist construals of attribution of agency to collectives. (shrink)

I present and defend the generalized selected effects theory (GSE) of function. According to GSE, the function of a trait consists in the activity that contributed to its bearer’s differential reproduction, or differential retention, within a population. Unlike the traditional selected effects (SE) theory, it does not require that the functional trait helped its bearer reproduce; differential retention is enough. Although the core theory has been presented previously, I go significantly beyond those presentations by providing a new argument for GSE (...) and defending it from a recent objection. I also sketch its implications for teleosemantics and philosophy of medicine. (shrink)

This paper seeks to clarify and defend the proposition that moral realism is best elaborated as a moral doctrine. I begin by upholding Ronald Dworkin’s anti-Archimedean critique of the error theory against some strictures by Michael Smith, and I then briefly suggest how a proponent of moral realism as a moral doctrine would respond to Smith’s defense of the Archimedeanism of expressivism. Thereafter, this paper moves to its chief endeavor. By differentiating clearly between expressivism and quasi-realism, the paper highlights both (...) their distinctness and their compatibility. In so doing, it underscores the affinities between Blackburnian quasi-realism and moral realism as a moral doctrine. Finally, this paper contends—in line with my earlier work on these matters—that moral realism as a moral doctrine points to the need for some reorienting of meta-ethical enquiries rather than for the abandoning of them. (shrink)

At some point in the future – perhaps within the next few decades – it will be possible for foetuses to develop completely outside the womb. Ectogenesis, as this technology is called, raises substantial issues for the abortion debate. One such issue is that it will become possible for a woman to have an abortion, in the sense of having the foetus removed from her body, but for the foetus to be kept alive. We argue that while there is a (...) right to an abortion, there are reasons to doubt that there is a right to the death of the foetus. Our strategy in this essay is to consider and reject three arguments in favour of this latter right. The first claims that women have a right not to be biological mothers, the second that women have a right to genetic privacy, and the third that a foetus is one's property. Furthermore, we argue that it follows from rejecting the third claim that genetic parents also lack a right to the destruction of cryopreserved embryos used for in vitro fertilization. The conclusion that a woman possesses no right to the death of the foetus builds upon the claims that other pro-choice advocates, such as Judith Jarvis Thomson, have made. (shrink)

The aim of this paper is to show that a comprehensive account of the role of representations in science should reconsider some neglected theses of the classical philosophy of science proposed in the first decades of the 20th century. More precisely, it is argued that the accounts of Helmholtz and Hertz may be taken as prototypes of representational accounts in which structure preservation plays an essential role. Following Reichenbach, structure-preserving representations provide a useful device for formulating an up-to-date version of (...) a (relativized) Kantian a priori. An essential feature of modern scientific representations is their mathematical character. That is, representations can be conceived as (partially) structure-preserving maps or functions. This observation suggests an interesting but neglected perspective on the history and philosophy of this concept, namely, that structure-preserving representations are closely related to a priori elements of scientific knowledge. Reichenbach’s early theory of a relativized constitutive but non-apodictic a priori component of scientific knowledge provides a further elaboration of Kantian aspects of scientific representation. To cope with the dynamic aspects of the evolution of scientific knowledge, Cassirer proposed a re-interpretation of the concept of representation that conceived of a particular representation as only one phase in a continuous process determined by pragmatic considerations. Pragmatic aspects of representations are further elaborated in the classical account of C.I. Lewis and the more modern of Hasok Chang. (shrink)

This is the second in a two part series of articles that attempt to clarify the nature and enduring relevance of Kant's concept of a priori knowledge. (For Part I, see below.) In this article I focus mainly on Saul Kripke's critique of Kant, in Naming and Necessity. I argue that Kripke draws attention to a genuine defect in Kant's epistemological framework, but that he used definitions of certain key terms that were quite different from Kant's definitions. When Kripke's definitions (...) are replaced by Kant's definitions, Kripke's account of the status of naming turns out to be a defense of analytic aposteriority as a significant classification of knowledge that Kant neglected. I also introduce here a new way of understanding such epistemological labels, as defining the perspective adopted by the knowing subject in a given situation, rather than an objective characteristic of certain propositions as such. (shrink)

The question as to what makes a perfect Aristotelian syllogism a perfect one has long been discussed by Aristotelian scholars. G. Patzig was the first to point the way to a correct answer: it is the evidence of the logical necessity that is the special feature of perfect syllogisms. Patzig moreover claimed that the evidence of a perfect syllogism can be seen for Barbara in the transitivity of the a-relation. However, this explanation would give Barbara a different status over the (...) other three first figure syllogisms. I argue that, taking into account the role of the being-contained-as-in-a-whole formulation, transitivity can be seen to be present in all four first figure syllogisms. Using this wording will put the negation sign with the predicate, similar to the notation in modern predicate calculus. (shrink)

We consider a natural-language sentence that cannot be formally represented in a first-order language for epistemic two-dimensional semantics. We also prove this claim in the “Appendix” section. It turns out, however, that the most natural ways to repair the expressive inadequacy of the first-order language render moot the original philosophical motivation of formalizing a priori knowability as necessity along the diagonal.

What ought to be the aims of science? How can science best serve humanity? What would an ideal science be like, a science that is sensitively and humanely responsive to the needs, problems and aspirations of people? How ought the institutional enterprise of science to be related to the rest of society? What ought to be the relationship between science and art, thought and feeling, reason and desire, mind and heart? Should the social sciences model themselves on the natural sciences: (...) or ought they to take a different form if they are to serve the interests of humanity objectively, sensitively and rigorously? Might it be possible to get into human life, into art, education, politics, industry, international affairs, and other domains of human activity, the same kind of progressive success that is found so strikingly, on the intellectual level, within science? These are some of the questions tackled by What’s Wrong With Science? But the book is no abstruse treatise on the philosophy of science. Most of it takes the form of a passionate debate between a Scientist and a Philosopher, a debate that is by turns humorous, ironical, bitter, dramatically explosive. Even as the argument explores the relationship between thought and feeling, reason and desire, the two main protagonists find it necessary to examine their own feelings and motivations. (shrink)

The distinction between a priori and a posteriori knowledge has been the subject of an enormous amount of discussion, but the literature is biased against recognizing the intimate relationship between these forms of knowledge. For instance, it seems to be almost impossible to find a sample of pure a priori or a posteriori knowledge. In this paper, it will be suggested that distinguishing between a priori and a posteriori is more problematic than is often suggested, and that a priori and (...) a posteriori resources are in fact used in parallel. We will define this relationship between a priori and a posteriori knowledge as the bootstrapping relationship. As we will see, this relationship gives us reasons to seek for an altogether novel definition of a priori and a posteriori knowledge. Specifically, we will have to analyse the relationship between a priori knowledge and a priori reasoning , and it will be suggested that the latter serves as a more promising starting point for the analysis of aprioricity. We will also analyse a number of examples from the natural sciences and consider the role of a priori reasoning in these examples. The focus of this paper is the analysis of the concepts of a priori and a posteriori knowledge rather than the epistemic domain of a posteriori and a priori justification. (shrink)

Recently we proposed "quantum language" (or, the linguistic Copenhagen interpretation of quantum mechanics"), which was not only characterized as the metaphysical and linguistic turn of quantum mechanics but also the linguistic turn of Descartes=Kant epistemology. We believe that quantum language is the language to describe science, which is the final goal of dualistic idealism. Hence there is a reason to want to clarify, from the quantum linguistic point of view, the following problems: "brain in a vat argument", "the Cogito proposition", (...) "five-minute hypothesis", "only the present exists", "Copernican revolution", "McTaggart's paradox", and so on. In this paper, these will be discussed and clarified in quantum language. That is, these are not in quantum language. Also we emphasize that Leibniz's relationalism in Leibniz-Clarke correspondence is regarded as one of the most important parts of the linguistic Copenhagen interpretation of quantum mechanics. This paper is the revised version of the paper: Open Journal of Philosophy, 2018 Vol.8, No.5, 466-480). (shrink)

How should ‘the physical’ be defined for the purpose of formulating physicalism? In this paper I defend a version of the via negativa according to which a property is physical just in case it is neither fundamentally mental nor possibly realized by a fundamentally mental property. The guiding idea is that physicalism requires functionalism, and thus that being a type identity theorist requires being a realizer-functionalist. In §1 I motivate my approach partly by arguing against Jessica Wilson's no fundamental mentality (...) constraint. In §2 I set out my preferred definition of ‘the physical’ and make my case that physicalism requires functionalism. In §3 I defend my proposal by attacking the leading alternative account of ‘the physical,’ the theory-based conception. Finally, in §4 I draw on my definition, together with Jaegwon Kim's account of intertheoretic reduction, to defend the controversial view that physicalism requires a priori physicalism. (shrink)

Psychology considered as a natural science began as Aristotelian "physics" or "natural philosophy" of the soul, conceived as an animating power that included vital, sensory, and rational functions. C. Wolff restricted the term " psychology " to sensory, cognitive, and volitional functions and placed the science under metaphysics, coordinate with cosmology. Near the middle of the eighteenth century, Krueger, Godart, and Bonnet proposed approaching the mind with the techniques of the new natural science. At nearly the same time, Scottish thinkers (...) placed psychology within moral philosophy, but distinguished its "physical" laws from properly moral laws. British and French visual theorists developed mathematically precise theories of size and distance perception; they created instruments to test these theories and to measure visual phenomena such as the duration of visual impressions. By the end of the century there was a flourishing discipline of empirical psychology in Germany, with a professorship, textbooks, and journals. The practitioners of empirical psychology at this time typically were dualists who included mental phenomena within nature. Accordingly, psychology as a natural scientific disciplines was not invented in the 18th and 19th centuries, but *remade* from the extant empirical psychology. (shrink)

Several prominent contemporary philosophers, including Jürgen Habermas, John Caputo, and Robert Bernasconi, have at times painted a somewhat negative picture of Gadamer as not only an uncritical traditionalist, but also as one whose philosophical project fails to appreciate difference. Against such claims, I argue that Gadamer’s reflections on art exhibit a genuine appreciation for alterity not unrelated to his hermeneutical approach to the other. Thus, by bringing Gadamer’s reflections on our experience of art into conversation with key aspects of his (...) philosophical hermeneutics, we are able to better assess the viability of Gadamer’s contributions to contemporary discussions of difference and alterity. -/- Sections two through six focus on key concepts in Gadamer’s account of art’s dynamic ontology and our experience of art. Such concepts include the play structure of art, hermeneutic identity, tarrying with a work, and contemporaneity. The opening sections provide not only a discussion of these central themes, but they also (1) draw attention to the various ways in which difference and otherness are integral to Gadamer’s account, and (2) utilize relevant musical examples that prepare the reader for a more focused discussion of a Gadamerian approach to free jazz in section seven. By highlighting how Gadamer’s understanding of art possesses a dialogical play structure, is characterized by identity and difference, requires actively engaged spectators and auditors, and is amenable to what many criticize as an unintelligible musical expression, viz. free jazz, Gadamer’s project is shown as other-affirming and open to ambiguity and dynamism. That is, the essential structures and concepts characterizing Gadamer’s reflections on art are likewise central to his overall hermeneutical project, and hence are not rightly described as un-attuned to difference or other-negating. Rather, Gadamer’s philosophical project upholds difference, since it requires a dialogical interplay between self and other that creates the possibility for a transformative experience. (shrink)

This paper argues for and explores the implications of the following epistemological principle for knowability a priori (with 'Ka' abbreviating 'it is knowable a priori that'). -/- (AK) For all ϕ, ψ such that ϕ semantically presupposes ψ: if Ka(ϕ), Ka(ψ). -/- Well-known arguments for the contingent a priori and a priori knowledge of logical truth founder when the semantic presuppositions of the putative items of knowledge are made explicit. Likewise, certain kinds of analytic truth turn out to carry semantic (...) presuppositions that make them ineligible as items of a priori knowledge. -/- On a happier note, I argue that (AK) offers an appealing, theory-neutral explanation of the a posteriori character of certain necessary identities, as well as an interesting rationalization for a commonplace linguistic maneuver in philosophical work on the a priori. (shrink)