Throughout the biological and biomedical sciences there is a growing need for, prescriptive ‘minimum information’ (MI) checklists specifying the key information to include when reporting experimental results are beginning to find favor with experimentalists, analysts, publishers and funders alike. Such checklists aim to ensure that methods, data, analyses and results are described to a level sufficient to support the unambiguous interpretation, sophisticated search, reanalysis and experimental corroboration and reuse of data sets, facilitating the extraction of maximum value from data sets (...) them. However, such ‘minimum information’ MI checklists are usually developed independently by groups working within representatives of particular biologically- or technologically-delineated domains. Consequently, an overview of the full range of checklists can be difficult to establish without intensive searching, and even tracking thetheir individual evolution of single checklists may be a non-trivial exercise. Checklists are also inevitably partially redundant when measured one against another, and where they overlap is far from straightforward. Furthermore, conflicts in scope and arbitrary decisions on wording and sub-structuring make integration difficult. This presents inhibit their use in combination. Overall, these issues present significant difficulties for the users of checklists, especially those in areas such as systems biology, who routinely combine information from multiple biological domains and technology platforms. To address all of the above, we present MIBBI (Minimum Information for Biological and Biomedical Investigations); a web-based communal resource for such checklists, designed to act as a ‘one-stop shop’ for those exploring the range of extant checklist projects, and to foster collaborative, integrative development and ultimately promote gradual integration of checklists. (shrink)

The development of the Functional Genomics Investigation Ontology (FuGO) is a collaborative, international effort that will provide a resource for annotating functional genomics investigations, including the study design, protocols and instrumentation used, the data generated and the types of analysis performed on the data. FuGO will contain both terms that are universal to all functional genomics investigations and those that are domain specific. In this way, the ontology will serve as the “semantic glue” to provide a common understanding of data (...) from across these disparate data sources. In addition, FuGO will reference out to existing mature ontologies to avoid the need to duplicate these resources, and will do so in such a way as to enable their ease of use in annotation. This project is in the early stages of development; the paper will describe efforts to initiate the project, the scope and organization of the project, the work accomplished to date, and the challenges encountered, as well as future plans. (shrink)

This study compares 20 subjects, in each of three different settings, with serious psychotic disorder who hear voices, and compares their voice-hearing experience. We find that while there is much that is similar, there are notable differences in the kinds of voices that people seem to experience. In a California sample, people were more likely to describe their voices as intrusive unreal thoughts; in the South Indian sample, they were more likely to describe them as providing useful guidance; and in (...) our West African sample, they were more likely to describe them as morally good and causally powerful. What we think we may be observing is that people who fall ill with serious psychotic disorder pay selective attention to a constant stream of many different auditory and quasi-auditory events because of different “cultural invitations”—variations in ways of thinking about minds, persons, spirits and so forth. Such a process is consistent with processes described in the cognitive psychology and psychiatric anthropology literature, but not yet described or understood with respect to cultural variations in auditory hallucinations. We call this process “social kindling.”. (shrink)

For virtually all the major schools of Western opinion, the collapse of the Communist regimes in Eastern Europe and in the Soviet Union, between 1989 and 1991, represents a triumph of Western values, ideas, and institutions. If, for triumphal conservatives, the events of late 1989 encompassed an endorsement of “democratic capitalism” that augured “the end of history,” for liberal and social democrats they could be understood as the repudiation by the peoples of the former Soviet bloc of Marxism-Leninism in all (...) its varieties, and the reemergence of a humanist socialism that was free of Bolshevik deformation. The structure of political and economic institutions appropriate to the transition from post-Communism in the Soviet bloc to genuine civil society was, accordingly, modeled on Western exemplars—the example of Anglo-American democratic capitalism, of Swedish social democracy, or of the German social market economy— or on various modish Western academic conceptions, long abandoned in the Soviet and post-Soviet worlds, such as market socialism. No prominent school of thought in the West doubted that the dissolution of Communist power was part of a process of Westernization in which contemporary Western ideas and institutions could and would successfully be exported to the former Communist societies. None questioned the idea that, somewhere in the repertoire of Western theory and practice, there was a model for conducting the transition from the bankrupt institutions of socialist central planning, incorporated into the structure of a totalitarian state, to market institutions and a liberal democratic state. Least of all did anyone question the desirability, or the possibility, of reconstituting economic and political institutions on Western models, in most parts of the former Soviet bloc. (shrink)

In the framework of the minimalist program, the assumption that wh-in-situ move covertly to be assigned wide scope is infeasible. Rather, it is assumed that they must be interpretable in situ, and that syntactic conditions like ‘superiority’ are effects of economy, which restricts overt rather than covert movement of a wh-element. The remaining syntactic problem for this line of reasoning is the putative ECP effects of adverbial wh-adjuncts, which were the strongest evidence for covert movement. A serious semantic problem is (...) that the interpretative procedures which have been proposed for wh-in-situ – unselective binding or absorption – fail to capture correctly their interpretation. I will argue first that both problems are solved if the interpretation in situ employs choice functions, and it is the function variable, rather than an individual variable, which is long-distance bound by the question existential operator. Adverbial adjuncts, which cannot be interpreted via choice functions, cannot, therefore, be interpreted in situ. However, the concept of economy underlying the account of overt superiority effects requires both theoretical and empirical clarification (as it leaves some empirical problems unaddressed). I argue, following a proposal by Golan (1993), that in this case the economy considerations apply at the interface (‘interface economy’) and that they consider not only different derivations out of the same numeration, but also their semantic representation. (shrink)

Analysis of two 3D surveys, available well data, published outcrop data and subsurface information, as well as production data available from the state of Pennsylvania, demonstrates that wide-azimuth seismic is sensitive to variations in fracturing at the scale of individual pads or even individual wells. These variations in fracturing begin to explain why production varies significantly, even locally, within the Marcellus Shale gas play. Rose diagrams from quantitative fracture analysis using azimuthal seismic velocity volumes were compared with published data from (...) Appalachian black shale outcrops and subsurface fracture models proposed in various papers to validate the results from subsurface data. These analyses provided insight into the rock fabric and the presence of systematic joints that likely affect production. There was a strong correlation between the low anisotropy and low heterogeneity of anisotropy and high estimated ultimate recovery. Additionally, interpreted fracture trend azimuths differed between areas of larger gas EUR and areas of smaller gas EUR as defined by decline curve analysis. Some perforations were likely to perform much better than others along the borehole, based on observed heterogeneity in the seismic profiles and map view. (shrink)

A model of the neuropsychology of anxiety is proposed. The model is based in the first instance upon an analysis of the behavioural effects of the antianxiety drugs in animals. From such psychopharmacologi-cal experiments the concept of a “behavioural inhibition system” has been developed. This system responds to novel stimuli or to those associated with punishment or nonreward by inhibiting ongoing behaviour and increasing arousal and attention to the environment. It is activity in the BIS that constitutes anxiety and that (...) is reduced by antianxiety drugs. The effects of the antianxiety drugs in the brain also suggest hypotheses concerning the neural substrate of anxiety. Although the benzodiazepines and barbiturates facilitate the effects of γ-aminobutyrate, this is insufficient to explain their highly specific behavioural effects. Because of similarities between the behavioural effects of certain lesions and those of the antianxiety drugs, it is proposed that these drugs reduce anxiety by impairing the functioning of a widespread neural system including the septo-hippocampal system, the Papez circuit, the prefrontal cortex, and ascending monoaminergic and cholinergic pathways which innervate these forebrain structures. Analysis of the functions of this system suggests that it acts as a comparator: it compares predicted to actual sensory events and activates the outputs of the BIS when there is a mismatch or when the predicted event is aversive. Suggestions are made as to the functions of particular pathways within this overall brain system. The resulting theory is applied to the symptoms and treatment of anxiety in man, its relations to depression, and the personality of individuals who are susceptible to anxiety or depression. (shrink)

Theodore Roszak's compelling parable, The Memoirs of Elizabeth Frankenstein, provides an (eco)-feminist view of the “Night of the Living Dead Model” and suggests that only the equal union of “masculine” and “feminine” energies will help us resolve the current eco-crisis. This article further explores the consequences of the highly masculinized post-Enlightenment rationalism as demonstrated in Roszak's novel. Although this article agrees that there is a dangerous imbalance between natural/spiritual and scientific/rational viewpoints, it also stresses that the extreme genderification of these (...) energies is potentially problematic. (shrink)

How do we refer to people in everyday conversation? No matter the language or culture, we must choose from a range of options: full name ('Robert Smith'), reduced name ('Bob'), description ('tall guy'), kin term ('my son') etc. Our choices reflect how we know that person in context, and allow us to take a particular perspective on them. This book brings together a team of leading linguists, sociologists and anthropologists to show that there is more to person reference than meets (...) the eye. Drawing on video-recorded, everyday interactions in nine languages, it examines the fascinating ways in which we exploit person reference for social and cultural purposes, and reveals the underlying principles of person reference across cultures from the Americas to Asia to the South Pacific. Combining rich ethnographic detail with cross-linguistic generalizations, it will be welcomed by researchers and graduate students interested in the relationship between language and culture. (shrink)

When bodies are conceived as permeable fields our physical forms become inseparable from each other and the world from which they manifest. The extension of one’s subjectivity to include cosmological divinities emphasizes the many other bodies which, in some cultural contexts, may overlap and unite with the world. In this article I explore how narratives of a Tibetan Buddhist high-lama’s death and trajectory of lives contain complex formulations of Tibetan theories of embodiment. An ethnographic attendance to biographical writings and teachings (...) at the time of his funerary ceremonies reveals not only how trikaya, or the notion of three bodies, coheres in Tibetan conceptual frameworks, but also how the articulation of these bodies affects new ways to intersubjectively engage with the deceased. (shrink)

This article attempts to draw the scope and content of contemporary Political Theology, based on a review of the 2013 publication titled, Political Theology: Contemporary challenges and future directions, edited by Francis Schüssler Fiorenza, Klaus Tanner and Michael Welker. The book is a collection of contributions which explore the contemporary content and potential future of the subject discipline. ‘Political Theology’ as critical theology and as a ‘theology with its face towards the world’ is committed to ‘justice, peace and the integrity (...) of creation’ and is multifaceted. It represents a discipline with which theologians reflect on political-theological objectives across continents and paradigms. The article concludes with a brief investigation of the implications of insights offered in the book for the South African context. (shrink)

In this paper I employ the analysis of play to clarify the distinction between an agreement and a consensus, and I argue that it is the conditions supplied by the playful process that enable us to partake in the recognition and creation of truth. Gadamer's hermeneutical truth, unlike propositional truth, speaks of the interpretive act whereby meaning is recognized. This interpretive recognition of meaning is described by Gadamer as an occurrence of interpretive play orgenuine understanding. Regarding Gadamer's conception of truth (...) as modelled on agreement rather than consensus, I demonstrate that it is in the process of play that we achieve the making and maintaining of the conditions that are necessary for agreement, and that the nature of understanding is most clearly revealed by viewing it as a playful process. (shrink)

This essay begins with a perceived problem found in Maurice Blanchot’s work, namely that, while on the one hand, love as we find it in friendship is based upon the separation of two people, a distance which can never be erased; on the other hand, Blanchot makes a comment in a letter to the effect that ‘the Jews are our brothers,’ indicating a love based upon the familial bond, or closeness. This would seem (to some readers, such as Jacques Derrida) (...) to involve a contradiction between the closeness and the distance created in a love relationship. The next section of this essay asks what ‘love of neighbor’ or ‘brotherly love’ could mean and if it can or does exist. Herein, we analyze the response of Sigmund Freud who thinks that it doesn’t exist—that I might be able to respect my neighbor, or have an ethical duty towards my neighbor, but not ‘love.’ We then take a closer look at Derrida, who does believe that there could be a love of neighbor, but that it is through understanding friendship—not brotherhood—that we arrive at this ‘democratic love.’ My conclusion (which aligns with Blanchot and Emmanuel Levinas to some degree) is that: (1) we can have a love of neighbor; and (2) brotherhood, or what I call sibial love, is the best way to understand it. The first point is in accordance with Derrida’s view, while the latter is not. (shrink)

Recent work in moral psychology that claims to show that human beings make moral judgements on the basis of multiple, divergent moral foundations has been influential in both moral psychology and moral philosophy. Primarily, such work has been taken to undermine monistic moral theories, especially those pertaining to the prevention of harm. Here, I call one of the most prominent and influential empirical cases for moral pluralism into question, namely that of Jonathan Haidt and his colleagues. I argue that Haidt (...) et al.’s argument is not as strong as it is often made out to be, given significant problems with the design of one of the key experiments used to ground the claim that there are divergent moral foundations across cultures. The flaws that I point out pose a significant challenge to Haidt et al.’s findings and have a detrimental impact on subsequent work based on this immensely influential experiment. Accordingly, I argue that both empirical and normative claims made on the basis of Haidt et al.’s findings should be treated with caution. I conclude by making some suggestions as to how some of the problems that I point out might be addressed. (shrink)

This issue’s “Legal Briefing” column continues coverage of recent legal developments involving medical decision making for unbefriended patients. These patients have neither decision-making capacity nor a reasonably available surrogate to make healthcare decisions on their behalf. This topic has been the subject of recent articles in JCE. It has been the subject of major policy reports. Indeed, caring for the unbefriended has even been described as the “single greatest category of problems” encountered in bioethics consultation. Moreover, the scope of the (...) problem continues to expand, especially with rapid growth in the elderly population and with an increased prevalence of dementia. Unfortunately, most U.S. jurisdictions have failed to adopt effective healthcare decision-making systems or procedures for the unbefriended. “Existing mechanisms to address the issue of decision making for the unbefriended are scant and not uniform.” Most providers are “muddling through on an ad hoc basis.” Still, over the past several months, a number of state legislatures have finally addressed the issue. These developments and a survey of the current landscape are grouped into the following 14 categories. The first two categories define the problem of medical decision making for the unbefriended. The remaining 12 describe different solutions to the problem. The first six categories were covered in Part 1 of this article; the last eight categories are covered in this issue . 1. Who are the unbefriended? 2. Risks and problems of the unbefriended 3. Prevention: advance care planning, diligent searching, and careful capacity assessment 4. Decision-making mechanisms and standards 5. Emergency exception to informed consent 6. Expanded default surrogate lists: close friends 7. Private guardians 8. Volunteer guardians 9. Public guardians 10. Temporary and emergency guardians 11. Attending physicians 12. Other clinicians, individuals, and entities 13. Institutional committees 14. External committees. (shrink)

Participants compared the mental capacities of various human and nonhuman characters via online surveys. Factor analysis revealed two dimensions of mind perception, Experience and Agency. The dimensions predicted different moral judgments but were both related to valuing of mind.

Metaphors for the encounter between God and humanity and a roaming theologian’s reflective journey. This article maps the theology of Christo van der Merwe as a mobilising theology which aided the Netherdutch Reformed Church in Africa in discerning its character, role and purpose. The core of Van der Merwe’s theology consists of a journey with God as encountered in the narratives about Jesus and the Spirit told in the Christian Bible. The article shows that the mobilising core of his theology (...) is due to an ‘interoperational relationship’ between ‘knowing and believing’. In the article, the metaphor ‘roaming’ is used to illustrate this biographical journey as contextual theology which equips pastors with ministerial skills to take care of people who are haunted by trauma. (shrink)

American liberals believe that both civil liberties and civil rights are harmonious aspects of a basic commitment to human rights. But recently these two clusters of values have seemed increasingly to conflict – as, for example, with the feminist claim that the legal toleration of pornography, long a goal sought by civil libertarians, actually violates civil rights as a form of sex discrimination. Here I propose an interpretation of the conflict of civil rights and civil liberties in its latest manifestation: (...) the controversy over how to treat discriminatory verbal harassment on American campuses. I was involved with the controversy in a practical way at Stanford, where I helped draft a harassment regulation that was recently adopted by the university. Like the pornography issue, the harassment problem illustrates the element of paradox in the conflict of civil-liberties and civil-rights perspectives or mentalities. This problem does not simply trigger familiar disagreements between liberals of a classical or libertarian orientation as against those of a welfare state or social democratic one – though it does sometimes do that. In my experience, the issue also has the power to appear to a single person in different shapes and suggest different solutions as it oscillates between being framed in civil-liberties and in civil-rights terms. At the same time, however, it remains recognizably the same problem. It is thus a very practical and political example of the kind of tension noted by Wittgenstein in the aphorism that heads this essay – a puzzle of interpretive framing, of “seeing-as.”. (shrink)

Mind perception entails ascribing mental capacities to other entities, whereas moral judgment entails labeling entities as good or bad or actions as right or wrong. We suggest that mind perception is the essence of moral judgment. In particular, we suggest that moral judgment is rooted in a cognitive template of two perceived minds—a moral dyad of an intentional agent and a suffering moral patient. Diverse lines of research support dyadic morality. First, perceptions of mind are linked to moral judgments: dimensions (...) of mind perception (agency and experience) map onto moral types (agents and patients), and deficits of mind perception correspond to difficulties with moral judgment. Second, not only are moral judgments sensitive to perceived agency and experience, but all moral transgressions are fundamentally understood as agency plus experienced suffering—that is, interpersonal harm—even ostensibly harmless acts such as purity violations. Third, dyadic morality uniquely accounts for the phenomena of dyadic completion (seeing agents in response to patients, and vice versa), and moral typecasting (characterizing others as either moral agents or moral patients). Discussion also explores how mind perception can unify morality across explanatory levels, how a dyadic template of morality may be developmentally acquired, and future directions. (shrink)

The British bestseller Straw Dogs is an exciting, radical work of philosophy, which sets out to challenge our most cherished assumptions about what it means to be human. From Plato to Christianity, from the Enlightenment to Nietzsche and Marx, the Western tradition has been based on arrogant and erroneous beliefs about human beings and their place in the world. Philosophies such as liberalism and Marxism think of humankind as a species whose destiny is to transcend natural limits and conquer the (...) Earth. John Gray argues that this belief in human difference is a dangerous illusion and explores how the world and human life look once humanism has been finally abandoned. The result is an exhilarating, sometimes disturbing book that leads the reader to question our deepest-held beliefs. Will Self, in the New Statesman , called Straw Dogs his book of the year: “I read it once, I read it twice and took notes . . . I thought it that good.” “Nothing will get you thinking as much as this brilliant book” ( Sunday Telegraph ). (shrink)

ABSTRACTDepression is associated with negative autobiographical thinking regarding the past and the future. The association between the two temporal dimensions, however, has not been examined. In t...

Offender populations experience their incarceration through different lenses and often as a spiritual journey of suffering. During 2017 and 2018 a study was conducted by the authors with 30 men serving long-term sentences in Correctional Centre A, Zonderwater Management Area in the Gauteng province of South Africa. Following interviews and focus group sessions, the authors report on participants’ representations on how their constructed views of God assist them to find meaning in suffering while incarcerated. Narrative inquiry as a philosophical framework (...) was applied, which presupposes equality between the researcher and the participant, the unmediated representation of words as data, the researcher as auto-ethnographer and respectful submission to subjectivity. Participants’ views of God are thematised according to sets of God-images, firstly, as identified by Van der Ven in his book God Reinvented?, adapted by the authors to suit the contents of the participants’ God talk. Secondly, the ‘God-images in Africa’ were applied. The participants’ constructed God-images are divided into two categories: images that feed on the binary between divine and human and images that function in the dialogical spaces between divine and human where the incarcerated have internalised an external God. Binary images of God are presented by the apathetic God, retributive God, controlling God and the purifying God. However, a significant number of participants expressed their belief in God through the dialogical image of the compassionate God, and the suffering God as co-sufferer. The role of Africanness in constructing these God-images constitutes a special point of inquiry in this article, as reflected in the images of God defined by God the Great Ancestor and Divine Spirit, and God with whom a mystical union is formed. (shrink)