The translational research community, in general, and the Clinical and Translational Science Awards (CTSA) community, in particular, share the vision of repurposing EHRs for research that will improve the quality of clinical practice. Many members of these communities are also aware that electronic health records (EHRs) suffer limitations of data becoming poorly structured, biased, and unusable out of original context. This creates obstacles to the continuity of care, utility, quality improvement, and translational research. Analogous limitations to sharing objective data in (...) other areas of the natural sciences have been successfully overcome by developing and using common ontologies. This White Paper presents the authors’ rationale for the use of ontologies with computable semantics for the improvement of clinical data quality and EHR usability formulated for researchers with a stake in clinical and translational science and who are advocates for the use of information technology in medicine but at the same time are concerned by current major shortfalls. This White Paper outlines pitfalls, opportunities, and solutions and recommends increased investment in research and development of ontologies with computable semantics for a new generation of EHRs. (shrink)

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)

In the early years of the eighteenth century Leibniz had several interactions with John Toland. These included, from 1702 to 1704, discussions of materialism. Those discussions culminated with the consideration of Toland's 1704 Letters to Serena, where Toland argued that matter is necessarily active. In this paper I argue for two main theses about this exchange and its consequences for our wider understanding. The first is that, despite many claims that Toland was at the time of Letters to Serena a (...) Spinozist, we can make better sense of him as a sort of Hobbesian materialist. The second main point concerns reasons for materialism, and in particular a story Locke tells in the Essay about materialists' motives. Toland defends his materialism by arguing that matter is active, and argues that matter is active by using a conceivability argument. But this is not the crude conceivability argument that Locke suggests motivates materialists. This (together with reflecting on some of Hobbes's arguments) suggests that we might well tell a Lockean story about reasons for early modern materialism, but not Locke's story. (shrink)

Draft for Wolfe and Symons (ed.), History and Philosophy of Materialism. This chapter looks at the discussion of materialism in John Locke’s Essay concerning Human Understanding, and then at parts of the Anglophone reaction to those discussions. It considers the early criticisms of Locke by Edward Stillingfleet and the anonymous author of three sets of Remarks on Locke’s Essay. It then looks at some other ways in which readers reacted to Locke’s discussions: the views of Anthony Collins and John Toland, (...) which one might be tempted to think of as Lockean materialism; William Carroll’s reading of Locke as a Spinozistic materialist; and the dualistic Lockeanism of William Duncan’s Lockean logic textbook. (shrink)

Gassendi and Hobbes knew each other, and their approaches to philosophy often seem similar. They both criticized the Cartesian epistemology of clear and distinct perception. Gassendi engaged at length with skepticism, and also rejected the Aristotelian notion of scientia, arguing instead for a probabilistic view that shows us how we can move on in the absence of certain and evident knowledge. Hobbes, in contrast, retained the notion of scientia, which is the best sort of knowledge and involves causal explanation. He (...) thought, however, that this sort of knowledge was only available in geometry and political philosophy. (shrink)

This paper discusses the materialist views of Margaret Cavendish, focusing on the relationships between her views and those of two of her contemporaries, Thomas Hobbes and Henry More. It argues for two main claims. First, Cavendish's views sit, often rather neatly, between those of Hobbes and More. She agreed with Hobbes on some issues and More on others, while carving out a distinctive alternative view. Secondly, the exchange between Hobbes, More, and Cavendish illustrates a more general puzzle about just what (...) divided materialists from their opponents. Seemingly straightforward disagreements about whether incorporeal substances exist turn out to be more complex ones in which the nature of those things is disputed at the same time as their existence. (shrink)

Leibniz's mill argument in 'Monadology' 17 is a well-known but puzzling argument against materialism about the mind. I approach the mill argument by considering other places where Leibniz gave similar arguments, using the same example of the machinery of a mill and reaching the same anti-materialist conclusion. In a 1702 letter to Bayle, Leibniz gave a mill argument that moves from his definition of perception (as the expression of a multitude by a simple) to the anti-materialist conclusion. Soon afterwards, in (...) the Preface to the New Essays, Leibniz gave a different mill argument. That argument depends upon there being no arbitrary and inexplicable connections in nature, because God would not create such things. Later, in the 'Monadology', Leibniz again used the mill example in arguing against materialism. That passage too, I argue, uses an argument from inexplicability rather than from Leibniz's definition of perception. (shrink)

In his Enquiry concerning the Principles of Morals David Hume said that a group of earlier modern philosophers, beginning with Malebranche, held that morality was founded on relations. In this paper I follow up on that suggestion by investigating pre-Humean views in moral philosophy according to which morality is founded on relations. I do that by looking at the work of Nicolas Malebranche, John Locke, and Samuel Clarke. Each of them talked prominently about relations in their accounts of basic aspects (...) of morality. Beyond that, each of them turns out to have held both metaphysical and epistemological views that might be described as founding morality on relations. Despite the definite differences between the three philosophers’ approaches, Hume does seem to have noticed a genuine connection here—even though he himself tended to ignore significant versions of this approach when criticizing it. (shrink)

Thomas Hobbes often includes powers and abilities in his descriptions of the world. Meanwhile, Hobbes’s philosophical picture of the world appears quite reductive, and he seems sometimes to say that nothing exists but bodies in motion. In more extreme versions of such a picture, there would be no room for powers. Hobbes is not an eliminativist about powers, but his view does tend toward ontological minimalism. It would be good to have an account of what Hobbes thinks powers are, and (...) how they fit into his understanding of the world. In this chapter, I investigate Hobbes’s account of the metaphysics of powers and abilities. Section 1 considers three important aspects of Hobbes’s account of powers: the connection between powers and causes; the modal aspects of powers; and the connection between powers and motions. Sections 2 and 3 then consider interpretive arguments about whether Hobbes identifies powers with underlying corporeal features. (shrink)

The notion of signification is an important part of Hobbes's philosophy of language. It also has broader relevance, as Hobbes argues that key terms used by his opponents are insignificant. However Hobbes's talk about names' signification is puzzling, as he appears to have advocated conflicting views. This paper argues that Hobbes endorsed two different views of names' signification in two different contexts. When stating his theoretical views about signification, Hobbes claimed that names signify ideas. Elsewhere he talked as if words (...) signified the things they named. Seeing this does not just resolve a puzzle about Hobbes's statements about signification. It also helps us to understand how Hobbes's arguments about insignificant speech work. With one important exception, they depend on the view that names signify things, not on Hobbes's stated theory that words signify ideas. The paper concludes by discussing whether arguments about insignificant speech can provide independent support for Hobbes's views about other issues, such as materialism. (shrink)

This paper investigates Locke’s views about materialism, by looking at the discussion in Essay IV.x. There Locke---after giving a cosmological argument for the existence of God---argues that God could not be material, and that matter alone could never produce thought. In discussing the chapter, I pay particular attention to some comparisons between Locke’s position and those of two other seventeenth-century philosophers, René Descartes and Ralph Cudworth. -/- Making use of those comparisons, I argue for two main claims. The first is (...) that the important argument of Essay IV.x.10 is fundamentally an argument about the causation of perfections. Indeed, Locke gives multiple such arguments in the chapter. My second main claim is that my proposed reading of IV.x is not merely consistent with what Locke says elsewhere about superaddition, but also provides reasons to favor a particular understanding of what superaddition is. (shrink)

Hobbes denies in Leviathan that we have an idea of God. He does think, though, that God exists, and does not even deny that we can think about God, even though he says we have no idea of God. There is, Hobbes thinks, another cognitive mechanism by means of which we can think about God. That mechanism allows us only to think a few things about God though. This constrains what Hobbes can say about our knowledge of God, and grounds (...) his belief in a fairly strong version of the thesis that God is incomprehensible. (shrink)

I argue that Hobbes isn't really a materialist in the early 1640s (in, e.g., the Third Objections to Descartes's Meditations). That is, he doesn't assert that bodies are the only substances. However, he does think that bodies are the only substances we can think about using imagistic ideas.

Language was central to Hobbes's understanding of human beings and their mental abilities, and criticism of other philosophers' uses of language became a favorite critical tool for him. This paper connects Hobbes's theories about language to his criticisms of others' language, examining Hobbes's theories of propositions and truth, and how they relate to his claims that various sorts of proposition are absurd. It considers whether Hobbes in fact means anything more by 'absurd' than 'false'. And it pays particular attention to (...) Hobbes's categorization of causes of absurdity and of types of incoherent proposition, arguing that Hobbes's approach is only loosely related to later discussions of category mistakes. (shrink)

I consider Leibniz's thoughts about Hobbes's materialism, focusing on his less-discussed later thoughts about the topic. Leibniz understood Hobbes to have argued for his materialism from his imagistic theory of ideas. Leibniz offered several criticisms of this argument and the resulting materialism itself. Several of these criticisms occur in texts in which Leibniz was engaging with the generation of British philosophers after Hobbes. Of particular interest is Leibniz's correspondence with Damaris Masham. Leibniz may have been trying to communicate with Locke, (...) but ended up discussing Masham's version of the argument for materialism that Leibniz attributed to Hobbes. (shrink)

Leibniz frequently uses the notion of expression, but it is not easy to see just how he understood that relation. This paper focuses on the particular case of the expression of God, which is prominent in the 'Discourse on Metaphysics'. The treatment of expression there suggests several questions. Which substances did Leibniz believe expressed God? Why did Leibniz believe those substances expressed God? And did he believe that all substances expressed God in the same way and for the same reasons? (...) In answering those questions the paper distinguishes two views about expression in the 'Discourse', considers Leibniz's reasons for holding that substances express their causes, and argues that Leibniz's views about emanative causation are important for understanding the unity of his apparently distinct views here. The paper concludes by looking briefly at how the 'Discourse' fits into the evolution of Leibniz's views on this issue over time. (shrink)

Early modern debates about the nature of matter interacted with debates about whether matter could think. In particular, some philosophers (e.g., Cudworth and Leibniz) objected to materialism about the human mind on the grounds that matter is passive, thinking things are active, and one cannot make an active thing out of passive material. This paper begins by looking at two seventeenth-century materialist views (Hobbes’s, and one suggested but not endorsed by Locke) before considering that objection (which I call here the (...) Activity Argument). In discussion, I note that several philosophers of the time believed that matter was active. That view opens up a possible response to the Activity Argument. The paper concludes by looking at the views of two materialists of the time who also believed that matter was active, Toland and Cavendish. (shrink)

This paper considers Margaret Cavendish's distinctive anti-mechanist materialism, focusing on her 1664 Philosophical Letters, in which she discusses the views of Hobbes, Descartes, and More, among others. The paper examines Cavendish's views about natural, material souls: the soul of nature, the souls of finite individuals, and the relation between them. After briefly digressing to look at Cavendish's views about divine, supernatural souls, the paper then turns to the reasons for Cavendish's disagreement with mechanist accounts. There are disagreements over the explanation (...) of particular phenomena, but also a broader disagreement over what to take as one's most basic causal model. (shrink)

A survey of the issue. Topics include Descartes; early critics of Descartes; occasionalism and pre-established harmony; materialism; idealism; views about animal minds; and simplicity.

Thomas Hobbes was, rather famously, a nominalist. The core of that nominalism is the belief that the only universal things are universal names: there are no universal objects, or universal ideas. This paper looks at what Hobbes's views about universal names were, how they evolved over time, and how Hobbes argued for them. The remainder of the paper considers two objections to Hobbes's view: a criticism made by several of Hobbes's contemporaries, that Hobbes's view could not account for people saying (...) the same thing in different languages; and a more recently popular criticism of Hobbes, that his nominalism's reliance on similarity implicitly (and inconsistently) involves reliance on a universal. (shrink)

Margaret Cavendish (1623-73) held a number of surprising philosophical views. These included a materialist panpsychism, and some views in what we might call environmental ethics. Panpsychism, though certainly not unheard of, is still often a surprising view. Views in environmental ethics - even just views that involve a measure of environmental concern - are unusual to find in early modern European philosophy. Cavendish held both of these surprising views. One might suspect that panpsychism provides some reasons for environmental concern. I (...) argue, however, that Cavendish did not derive her environmental ethics from her panpsychism. If there is a connection, it is a developmental one, leading from the ethics to the panpsychism. The investigation of these issues also provides an occasion for thinking more generally about how Cavendish's views fit together, and whether she developed a systematic philosophy in the manner of several of her contemporaries. (shrink)

This chapter considers Ralph Cudworth as a philosophical critic of Hobbes. Cudworth saw Hobbes as a representative of the three views he was attacking: atheism, determinism, and the denial that morality is eternal and immutable. Moreover, he did not just criticize Hobbes by assuming that a general critique of those views applied to Hobbes’s particular case. Rather, he singled out Hobbes, often by quoting him, and argued against the distinctively Hobbesian positions he had identified. In this chapter I look at (...) Cudworth as a critic of Hobbes in two of the three central areas, atheism and ethics, focusing on passages where we see him explicitly picking out Hobbes. (shrink)

Hobbes repeatedly expressed concerns about moral and political language, e.g., about the bad consequences of various uses and misuses of language. He did not simply focus on the consequences though. He also attempted to understand the problems, using the central semantic notion in his philosophy of language, signification. Hobbes, in both the Elements of Law and Leviathan, argues that a wide variety of terms – including ‘good’, ‘bad’, and the names of virtues and vices – have a double and inconstant (...) signification. This paper explores and explains that theory of Hobbes's. (In the course of the discussion, two other interpretations of Hobbes's claims are discussed: Pettit’s discussion in terms of indexicals, and Alexandra’s in terms of sense and reference.) This phenomenon is, Hobbes thinks, pervasive in our use of moral and political language. Indeed he says his analysis applies to all “names of such things as affect us, that is, which please, and displease us” (Leviathan 4.24), which seems a very broad category indeed. This inconstancy of signification has considerable potential to cause confusion and conflict. Given those practical consequences, it is of some importance for Hobbes to find a solution to this problem. The paper examines several possible Hobbesian solutions to the problem. There is, however, reason to think that these suggested solutions cannot completely solve the problem. The paper concludes, then, by arguing that double and inconstant signification would always be a danger, even in a properly constituted Hobbesian commonwealth. (shrink)

We look at some interesting and important episodes in the life of early modern Epicureanism, focusing on natural philosophy. We begin with two early moderns who had a great deal to say about ancient Epicureanism: Pierre Gassendi and Ralph Cudworth. Looking at how Gassendi and Cudworth conceived of Epicureanism gives us a sense of what the early moderns considered important in the ancient tradition. It also points us towards three main themes of early modern Epicureanism in natural philosophy, which we (...) then discuss at greater length: atomism, materialism about the mind or soul, and the denial of providence, which was often accompanied by deflationary explanations of religious belief. (shrink)

Leibniz's correspondence with Thomas Burnett of Kemnay is probably best known for Leibniz's attempts to communicate with Locke via Burnett. But Burnett was also, more generally a source of English intellectual news for Leibniz. As such, Burnett provided an important part of the context in which Locke was presented to and understood by Leibniz. This paper examines the Leibniz-Burnett correspondence, and argues against Jolley's suggestion that "the context in which Leibniz learned about Locke was primarily a theological one". That said, (...) in thinking about Locke's Reasonableness of Christianity, and his subsequent defenses of it, Leibniz does offer an argument against Locke's book -- but not one that's closely related to Locke's theological views, or to any accusation of Socinianism. The paper also considers, by way of contrast, the way Leibniz and Burnett talk about the more obviously controversial figure John Toland. (shrink)

This is a short (1,000 word) introduction to Hobbes's materialism, covering (briefly) such issues as what the relevant notion of materialism is, Hobbes's debate with Descartes, and what Hobbes's arguments for materialism were.

I discuss Hume's views about whether simplicity and generality are positive features of explanations. In criticizing Hobbes and others who base their systems of morality on self interest, Hume diagnoses their errors as resulting from a "love of simplicity". These worries about whether simplicity is a positive feature of explanations emerge in Hume's thinking over time. But Hume does not completely reject the idea that it's good to seek simple explanations. What Hume thinks we need is good judgment about when (...) we are going too far in our search for simple explanations. These worries about simplicity are not unique to Hume. We can see versions of them in the work of Hutcheson, Smith, and Reid. (shrink)

Deborah Boyle's book is a splendid addition to the literature on the philosophy of Margaret Cavendish. It provides an overview of Cavendish's philosophical work, from her panpsychist materialism, through her views about human motivation and general political philosophy, to views about gender, health, and humans' relation to the rest of the natural world. Boyle emphasizes themes of order and regularity, but does not argue that there is a strong systematic connection between Cavendish's views. Indeed, she makes a point of noting (...) the different ways in which the themes of order and regularity work in different areas of Cavendish's philosophy.The early chapters consider Cavendish's natural philosophy.... (shrink)

This paper discusses two aspects of Larry May's book Limiting Leviathan. First it discusses a passage in Leviathan, to which May draws attention, in which Hobbes connects obligation to "that, which in the disputations of scholars is called absurdity". Secondly it looks at the book's discussion of Hobbes and pacifist attitudes, with reference to Hobbes's contemporary critic John Eachard.

In this paper I contend that the 'superfluity' of triangles is only apparent; all those specified are indeed required for the smallest sub-units, so long as the symmetry of the final body to be constructed is taken into account at earlier stages.

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)

(1996). What the prophet and the philosopher told their nations: A multi‐modal systems view of norms and civilisation. World Futures: Vol. 47, Unity and Diversity in Contemporary Systems Tinking: Systematic Pictures at an Exhibition, pp. 53-67.

Abstract: Colombia's armed conflict, one of the longest in the world, requires a special approach to transitional justice strategies. Institutionalized practices customs. Approach it from a perspective that, with the legislative and judicial actions, give rise to political-educational and ethical-cultural actions is key. Recognition and legitimacy are complementary. With Carlos S. Nino, we see the law as a collective action in time.

Background. The COVID-19 pandemic necessitated drastic changes to undergraduate medical training at the University of Botswana (UB). To save the academic year when campus was locked down, the Department of Medical Education conducted a needs assessment to determine the readiness for emergency remote teaching (ERT) of the Faculty of Medicine, UB. Objectives. To report on the findings of needs assessment surveys to assess learner and teaching staff preparedness for fair and just ERT, as defined by philosopher John Rawls. Methods. Needs (...) assessment surveys were conducted using Office 365 Forms distributed via WhatsApp, targeting medical students and teaching staff during the 5 undergraduate years. Data were analysed quantitatively and qualitatively. Results. Ninety-two percent (266/289) of students and 73.5% (62/84) of teaching staff responded. Surveys revealed a high penetration of smartphones among students, but poor internet accessibility and affordability in homes. Some teaching staff also reported internet and device insufficiencies. Only WhatsApp was accessible to students and teaching staff. Conclusions. For equitable access to ERT in the future, the surveys revealed infrastructural improvement needs, including wider, stronger, affordable WiFi coverage within Botswana and enhanced digital infrastructures in educational institutions, with increased support for students. (shrink)

The idea that causation involves the production of changes due to the exertion of influence of something on something else—the core idea of causal realism—used to be the default view. Today this idea is at the heart of (i) transmission/causal process accounts, (ii) mechanistic accounts, and (iii) powers-based accounts. However, as I have previously argued (Ingthorsson 2021) the above-mentioned approaches are based—to varying degree—on the very problematic assumption that causal influence is essentially unidirectional; that it passes from whatever is the (...) cause to the effect. As first pointed out be Mario Bunge (1959), the idea that causal influence is unidirectional is incompatible with what is today considered a scientific fact, notably that all interactions are perfectly reciprocal; whenever any object exerts an influence on any other object, the latter simultaneously exerts the same kind of influence, of the same magnitude, on the former. Drawing on Bunge’s result, I have developed a fourth approach to efficient causation that accepts the reciprocity of interactions (Ingthorsson 2002 & 2021). According to this view a cause is not the action of something on something else that receives the influence, but the reciprocal action between powerful particulars which results in a modification of both sides, producing a new state of affairs. In this paper, I present the core ideas of the four different approaches to causal efficacy, what I think is problematic with the first three and finally attempt to compare how well the four approaches fare in explaining two often discussed types of causal interactions: (i) collisions between billiard balls, and (ii) how water dissolves salt. I argue that only reciprocal actions between powerful particulars can plausibly claim to fully account for these phenomena, in a manner compatible with the theories and findings of the natural sciences. (shrink)

In this paper, we focus on whether and to what extent we judge that people are responsible for the consequences of their forgetfulness. We ran a series of behavioral studies to measure judgments of responsibility for the consequences of forgetfulness. Our results show that we are disposed to hold others responsible for some of their forgetfulness. The level of stress that the forgetful agent is under modulates judgments of responsibility, though the level of care that the agent exhibits toward performing (...) the forgotten action does not. We argue that this result has important implications for a long-running debate about the nature of responsible agency. (shrink)

Teachers encountered numerous challenges posed by the COVID-19 outbreak. Herewith, this study aimed to determine the challenges encountered by Filipino teachers in the new normal and their coping mechanisms. This study employed a qualitative inquiry to determine the challenges encountered and coping mechanisms employed by teachers amid modular instruction, involving 10 teachers from five secondary schools in the Philippines who participated voluntarily. Data were gathered through a written narrative from each participant and were analyzed thematically. Themed findings showed that these (...) teachers are greatly challenged in terms of learning quality transfer, module distribution and retrieval, students’ difficulties in following instruction, power disruption, internet connection, and health risks posed by the pandemic. Nevertheless, these teachers dealt with these difficulties by employing their own coping techniques. Teaching can be challenging and frustrating, especially in these difficult times, but as these teachers demonstrated, everything is possible. Hence, educators must be ready for any situation that may arise. This situation is unlikely to get better anytime soon; instead, teachers will need to adjust to and accept this reality. (shrink)

We discuss potential biorisks from large language models (LLMs). AI assistants based on LLMs such as ChatGPT have been shown to significantly reduce barriers to entry for actors wishing to synthesize dangerous, potentially novel pathogens and chemical weapons. The harms from deploying such bioagents could be further magnified by AI-assisted misinformation. We endorse several policy responses to these dangers, including prerelease evaluations of biomedical AIs by subject-matter experts, enhanced surveillance and lab screening procedures, restrictions on AI training data, and access (...) controls on biomedical AI. We conclude with a suggestion about future research directions in bioethics. (shrink)

We have begun work on two separate but related ontologies for the study of neurological diseases. The first, the Neurological Disease Ontology (ND), is intended to provide a set of controlled, logically connected classes to describe the range of neurological diseases and their associated signs and symptoms, assessments, diagnoses, and interventions that are encountered in the course of clinical practice. ND is built as an extension of the Ontology for General Medical Sciences — a high-level candidate OBO Foundry ontology that (...) provides a set of general classes that can be used to describe general aspects of medical science. ND is being built with classes utilizing both textual and axiomatized definitions that describe and formalize the relations between instances of other classes within the ontology itself as well as to external ontologies such as the Gene Ontology, Cell Ontology, Protein Ontology, and Chemical Entities of Biological Interest. In addition, references to similar or associated terms in external ontologies, vocabularies and terminologies are included when possible. Initial work on ND is focused on the areas of Alzheimer’s and other diseases associated with dementia, multiple sclerosis, and stroke and cerebrovascular disease. Extensions to additional groups of neurological diseases are planned. The second ontology, the Neuro-Psychological Testing Ontology (NPT), is intended to provide a set of classes for the annotation of neuropsychological testing data. The intention of this ontology is to allow for the integration of results from a variety of neuropsychological tests that assay similar measures of cognitive functioning. Neuro-psychological testing is an important component in developing the clinical picture used in the diagnosis of patients with a range of neurological diseases, such as Alzheimer’s disease and multiple sclerosis, and following stroke or traumatic brain injury. NPT is being developed as an extension to the Ontology for Biomedical Investigations. (shrink)

Monoclonal antibodies are essential biomedical research and clinical reagents that are produced by companies and research laboratories. The NIAID ImmPort (Immunology Database and Analysis Portal) resource provides a long-term, sustainable data warehouse for immunological data generated by NIAID, DAIT and DMID funded investigators for data archiving and re-use. A variety of immunological data is generated using techniques that rely upon monoclonal antibody reagents, including flow cytometry, immunofluorescence, and ELISA. In order to facilitate querying, integration, and reuse of data, standardized terminology (...) for describing monoclonal antibody reagents and their targets needs to be used for annotating data submitted to ImmPort. (shrink)

This paper presents a preliminary analysis of the first participatory budgeting experiment in the United States, in Chicago's 49th Ward. There are two avenues of inquiry: First, does participatory budgeting result in different budgetary priorities than standard practices? Second, do projects meet normative social justice outcomes? It is clear that allowing citizens to determine municipal budget projects results in very different outcomes than standard procedures. Importantly, citizens in the 49th Ward consistently choose projects that the research literature classifies as low (...) priority. The results are mixed, however, when it comes to social justice outcomes. While there is no clear pattern in which projects are located only in affluent sections of the ward, there is evidence of geographic clustering. Select areas are awarded projects like community gardens, dog parks, and playgrounds, while others are limited to street resurfacing, sidewalk repairs, bike racks, and bike lanes. Based on our findings, we offer suggestions for future programmatic changes. (shrink)

This article synthesizes the results of several interviews with argumentation scholars from across the American continents to address three questions regarding the connections in argumentation studies between North and South/Central America: “What motivated the study of argumentation in the Americas?” “What commonalities, if any, exist in argumentation studies across the Americas?” and “What should the future of argumentation studies in the Americas look like?” Using these interviews in combination with existing textual sources, the article also provides motivated suggestions for directions (...) for the future of the community in the field. (shrink)

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

This paper sets mathematics among the sciences, despite not being empirical, because it studies relations of various sorts, like the sciences. Each empirical science studies the relations among objects, which relations determining which science. The mathematical science studies relations as such, regardless of what those relations may be or be among, how relations themselves are related. This places it at the extreme among the sciences with no objects of its own (A Subject with no Object, by J.P. Burgess and G. (...) Rosen). Examples are discussed. The historical development of written mathematics from algorithms on clay tablets to theorems with proofs is said to show that application of algorithms to specific problems and theorems to scientific objects is like allegorical interpretation. Mathematics fits into the modern scientific context because the sciences, beginning with Galileo, have been constructed in imitation of mathematics. Viewing mathematics this way does not solve any ontological problems, but it does show how mathematics avoids them. Epistemological problems, insuperable for object realism, are simplified. For example, we have access to relations among any objects that we can consider objectively, first physical objects and then mathematical objects of greater and greater abstraction. (shrink)