Biological ontologies are used to organize, curate, and interpret the vast quantities of data arising from biological experiments. While this works well when using a single ontology, integrating multiple ontologies can be problematic, as they are developed independently, which can lead to incompatibilities. The Open Biological and Biomedical Ontologies Foundry was created to address this by facilitating the development, harmonization, application, and sharing of ontologies, guided by a set of overarching principles. One challenge in reaching these goals was that the (...) OBO principles were not originally encoded in a precise fashion, and interpretation was subjective. Here we show how we have addressed this by formally encoding the OBO principles as operational rules and implementing a suite of automated validation checks and a dashboard for objectively evaluating each ontology’s compliance with each principle. This entailed a substantial effort to curate metadata across all ontologies and to coordinate with individual stakeholders. We have applied these checks across the full OBO suite of ontologies, revealing areas where individual ontologies require changes to conform to our principles. Our work demonstrates how a sizable federated community can be organized and evaluated on objective criteria that help improve overall quality and interoperability, which is vital for the sustenance of the OBO project and towards the overall goals of making data FAIR. Competing Interest StatementThe authors have declared no competing interest. (shrink)

In The Politics of Exodus, Mark Dooley offers a lively interpretation of Kierkegaard as a precursor of the ethical and political insights of Jacques Derrida. While many connections have been forged in recent years between these two quintessentially "Continental" figures, Dooley's book argues that these affiliations run much deeper than any previous commentators have suggested. Indeed, his most controversial claim is that Kierkegaard is anything but a proponent of asocial individualism, but is one whose writings bear witness to (...) the notion of an "open quasi-community" which has driven much of Derrida's work over the past decade. In vigorously challenging conventional wisdom surrounding the place of Kierkegaard in contemporary thought and political theory, Dooley shows how powerfully postmodern and politically charged the latter's specifically 'religious' ideas are. As such, Kierkegaard ought to be read as someone who anticipated Derrida's claim that genuine responsibility in the political sphere depends upon a phophetic call for justice on behalf of the least among us. will appeal to anyone interested in the intersection of religion and postmodernism, as well as to those with interests in ethics and politics from a Continental perspective. It will undoubtedly change the way we read Kierkegaard in the new millennium. (shrink)

In lieu of an abstract, here is a brief excerpt of the content:Veritas Filia Temporis: Experience and Belief in Early Modern Culture *Brendan DooleyFew observers in the seventeenth century had any illusions about the reliability of political information imparted by the sources newly minted or voluminously increased during the course of the century. The newsletters appeared to be concocted from malicious gossip. 1The newspapers seemed to be published at the bidding of powerful political interests with little inclination to tell the (...) truth, 2and histories of recent events seemed to be based on faulty sources even when the writers endeavored to procure faithful accounts. “Truth is by nature elusive and slippery,” history theorist Agostino Mascardi admitted. All he could recommend as a defense for the inaccurate historian was the injunction against throwing the first stone: “Omnis homo mendax,” said David the holy king; and those who are such harsh critics of historians’ involuntary lies may well be astute trammelers of perfidy and deceit in their own lives.” 3He had no answer about historians who deliberately distorted the truth. In fact just when readers might have desired it most, from the earliest episodes of the Thirty-Years War to the last episodes of the Turkish Wars at the end of the century, the possibility of [End Page 487]gaining a realistic picture of the contemporary world seemed to be getting more and more remote.The argument of this article centers around a discussion of the cultural consequences of this late seventeenth-century trend. To some of the readers, writers, thinkers, and theorists in this period, the unreliability of information about their own time or about the past, however compounded by contemporary political and social circumstances, was nothing but a minor nuisance. To others it was a hint about the bad faith of the governments who influenced writers. To still others, this same unreliability raised deeply troubling questions about human nature and existence. It provided social and political reasons for historical skepticism, quite apart from one’s familiarity with Sextus Empiricus or the elite intellectual trends of the time. It placed everyday social and political reality in a new light, thus adding a more mundane element to the uneasy feeling produced by the new science and cosmology—the feeling, that is, of being borne along in uncontrollable currents whose exact nature the best minds nonetheless seemed incapable of understanding. It added to the disquiet produced by confessional disputes, suggesting that truth might be beyond human capacity to grasp. 4Not only in Italy but throughout Europe in the late seventeenth century this discussion will show, existing methods of ascertaining facts in political and military affairs both in the present and in past times came under a new sort of scrutiny as part of what some scholarship has regarded as no less than a wide-ranging “crisis of consciousness” at the threshold of the Enlightenment. 5The conclusion opens briefly onto the sequel of these episodes. The crisis was resolved at least in part by a corresponding movement for methodological change as well as by a reform of ideas about the proper place for intellectual improvisation in the formation of narrative in order to make historical writing persuasive as well as civically useful again. If the product of error and fraud was skepticism, the product of skepticism was modern historiography. 6 [End Page 488]History and ExperienceObviously, the elusiveness of political truth that helped touch off the late seventeenth-century crisis was no novelty of the age. Deliberate misinformation was a fully-recognized political strategy at least by the time that Machiavelli made it an explicit part of prudence by recommending the cultivation of good appearances and expressing his admiration for Pope Alexander VI and Ferdinand I of Spain as being the best liars of their time. 7In the late sixteenth century theorists all over Europe sought to join Machiavelli’s insights about the inner workings of state power to those of Tacitus in the light of conventional morality. 8In Italy it was the Piedmontese writer Giovanni Botero who, exploring these Tacitist perspectives in his Reason of State, expressed the fewest reservations about insisting on the propriety of a policy of state secrecy and misinformation. 9Florentine political theorist... (shrink)

Understanding "miracles" -- The matrix -- Knowing what you really want -- Getting into the details -- Taking action -- Expedited delivery -- The time of your life.

This article attempts to respond to Simon Critchley's claim in a recent debate with Richard Rorty, that the latter, by not fully recognizing its indebtedness to Levinas, misunderstands the political import of the work of Jacques Derrida. I maintain, pace Critchley, that trying to push the Derrida–Levinas connection too far will not only further compound Rorty's view of Derrida as a thinker devoid of political efficacy, but that it will moreover serve to obscure the significant differences which exist between Levinas (...) and Derrida – differences which cannot be overlooked in any serious discussion of the two thinkers in question. In the second half, I try to convince Critchley that what separates Derrida from Levinas is precisely what hooks him up with Rorty at a political level. Both, I argue, are committed to a civic religion of social hope. In so doing, I try to convince Rorty that his caricature of Derrida as a private writer without political consequence, ought now to be seriously reconsidered. (shrink)

Moral Matters: A Philosophy of Homecoming is Mark Dooley's attempt to offer an alternative to 'Cyberia'. It is a book about home, memory and identity. At a time when people are rapidly disengaging from those forms of life which once bound them together, it can be argued that our happiness depends on saving and conserving them. We cannot flourish in isolation or by detaching from the social sphere which surrounds us. We cannot truly prosper or progress if we choose (...) to forget where we came from or if we dismiss our inherited moral wisdom. And yet, in opting for loss, separation and homelessness, it seems we have done just that. We have opted for a rootless existence where alienation and amnesia are the norm. This powerful and passionate book shows how the alienated, 'postmodern' self can become re-rooted to time and place and restored to full humanity and happiness whilst moving in a virtual, hyperconnected world. In caring for creation, conserving culture and saving the sacred we can once again make our home in the world and experience the consolation of moving from loss to love."--Publisher's description. (shrink)

This paper argues that Hegel's depiction of knowledge, as presented in the Encyclopaedia philosophy of subjective Spirit, is founded on what he deems to be the practical interests of self-consciousness. More specifically, it highlights the significance of the will in Hegel's understanding of the cognitive process. I begin with a survey of the relation between category-formation and the notion of self-determining freedom in the Logic , and therewith draw attention to the unity of thinking and willing in the Concept. I (...) then indicate how Hegel's philosophy of subjective Spirit should be read as the applied logic of the Concept, according to which the socially constituted self-conscious I seeks to realise its claims to freedom through its theoretical cognitions of objects. As part of what could be called Hegel's integrative theory of the faculties, I finally argue that the will underscores both the determinate character of our theoretical cognitions and the reflexivity of knowledge in general. On this score, I maintain that Hegel, whose relation to Kant and Fichte I also consider, is of the view that it is with reference to willing that we can account for the self-referential nature of reason in toto as the actualised unity of theoretical-practical subjectivity. (shrink)

This paper explores the role that willing plays in Fichte’s transcendental idealism, as set out in the nova methodo lectures on the Wissenschaftslehre and elsewhere. I first consider the link between the idea of the self-positing I and freedom, as well as the bifurcation of the I into cognition and volition. I then pinpoint the significance of intellectual intuition as part of Fichte’s strategy of substantiating the actuality of freedom via practical reason, especially in relation to the way in which (...) our capacity for self-determination conditions our knowledge-claims about nature. Finally I indicate that the will is essential for intuitional experience, which entails the ability to distinguish pure willing from empirical willing. In this context, I argue that, for Fichte, willing is constitutive of the possibility of consciousnessin general, and the possibility of determinate knowledge in particular. (shrink)

A major study of renowned British Philosopher Roger Scruton, one of the most accomplished figures to have emerged from the British academy in the latter half of ...

If a utopia is a near perfect, or even a demonstrably superior, society, is there anything that endangers that society as soon as it is achieved? Yes. Prosperity! I have shown in “More's Utopia and the New World Utopias: Is the Good Life an Easy Life?”, that the actually existing, “real” New World Utopian communities were severely challenged by success. For example, the vigor of the Jansonite community in Bishop Hill, Illinois (1846-1860) sharply declined when that community met their survival (...) needs and had to deal with surpluses and comfort. As soon as communal efforts and group sacrifices produced prosperity, the attractiveness of communism faded. (shrink)

As social media becomes increasingly popular, human subjects researchers are able to use these platforms to locate, track, and communicate with study participants, thereby increasing participant retention and the generalizability and validity of research. The use of social media; however, raises novel ethical and regulatory issues that have received limited attention in the literature and federal regulations. We review research ethics and regulations and outline the implications for maintaining participant privacy, respecting participant autonomy, and promoting researcher transparency when using social (...) media to locate and track participants. We offer a rubric that can be used in future studies to determine ethical and regulation-consistent use of social media platforms and illustrate the rubric using our study team’s experience with Facebook. We also offer recommendations for both researchers and institutional review boards that emphasize the importance of well-described procedures for social media use as... (shrink)

In 15 insightful essays, Jacques Derrida and an international group of scholars of religion explore postmodern thinking about God and consider the nature of forgiveness in relation to the paradoxes of the gift. Among the themes addressed by contributors are the possibilities of imagining God as unthinkable, imagining God as non-patriarchal, imagining a return to Augustine, and imagining an age in which praise is far more important than narrative. Questioning God moves readers beyond the parameters of metaphysical reason and modernist (...) rationality as it attempts to think the questions of God and forgiveness in a postmodernist context. Contributors include John D. Caputo, Jacques Derrida, Mark Dooley, Francis Schüssler Fiorenza, Robert Gibbs, Jean Greisch, Kevin Hart, Richard Kearney, Cleo McNelly Kearns, John Milbank, Regina M. Schwartz, Michael J. Scanlon, and Graham Ward. Indiana Series in the Philosophy of Religion—Merold Westphal, general editor. (shrink)

Graduate and undergraduate students were asked to evaluate the ethicality and practicality of the lead character in several case scenarios. Students' responses indicated they believed practicality was more important than ethicality. The majority of students were able to determine the correct ethicality of the cases presented to them. The authors conclude that more research is needed in the antecedents of a student's value system.

"Aristotle was a systematic writer who often cross-referred to the definitions of terms given elsewhere in his work. Book 5 of the Metaphysics is important because it consists of definitions of the main uses of key terms in Aristotle's philosophy, and it is extremely valuable to have a commentary on this important text by Alexander of Aphrodisias, the leading commentator of his school. Alexander provides a detailed commentary on all of the thirty terms analysed in Book 5, weighing alternative interpretations (...) of what Aristotle says one against another, defending Peripatetic views against actual and possible criticisms, and attempting to integrate what is said in Book 5 into the context of the Metaphysics as a whole."--Bloomsbury Publishing. (shrink)

Summary A number of elite boys? schools in England have admitted girls for over 30 years, some thereby becoming mixed schools. In other schools, girls remain a very small minority. This paper focuses upon prospectuses from the latter type of school, arguing that prospectuses are particularly valuable as a basis for judging schools? policies and practices in their own terms. The researchers ask questions about the nature of this form of ?co-education?, particularly as it affects girls? educational and social opportunities. (...) On balance, the prospectuses paint a picture of boys? schools which happen to have girls in them rather than of schools whose policies and practices have become genuinely co-educational. (shrink)

Questioning Ethics is a major discussion by some of world's leading thinkers of some of the most important ethical issues confronting us today. New essays including Habermas, MacIntyre, Ricoeur and Kristeva discuss issues such as the nature of politics, women's rights, lying, repressed memory, historical debt and forgiveness, the self and responsibility, revisionism, bioethics and multiculturalism. The contributors organize their discussions along the topics of hermeneutics, deconstruction, critical theory, psychoanalysi and the applications of ethics. Also included in this collection is (...) an interview with Jacques Derrida which provides the most accessible insight into his thinking. Contributors: Karl-Otto Apel, Geoffrey Barash, John Caputo, Maeve Cooke, Simon Critchley, Jacques Derrida, Simon Glendinning, Jean Greish, Jurgen Habermas, Richard Kearney, Peter Kemp, Julia Kristeva, Alasdair MacIntyre, Thomas McCarthy, David Rasmussen, William J. Richardson, Paul Ricoeur, David Wood. (shrink)

Two key questions in the autophagy field are the mechanisms that underlie the signals for autophagy initiation and the source of membrane for expansion of the nascent membrane, the phagophore. In this review, we discuss recent findings highlighting the role of the classical endosomal pathway, from plasma membrane to lysosome, in the formation and expansion of the phagophore and subsequent degradation of the autophagosome contents. We also highlight the striking conservation of regulatory factors between the two pathways, including those regulating (...) membrane budding and fusion, and the role of the lysosome in sensing the nutrient status of the cell, regulating mTORC1 activity, and ultimately the initiation of autophagy.Editor's suggested further reading in BioEssays The evolution of dynamin to regulate clathrin‐mediated endocytosis Abstract. (shrink)

There are archetypal parallels between the shamanic African, and ‘diviner detectives' like Hercule Poirot, when it comes to tracking down homicidal sorcerers, and witches, on the one hand, and direct Western-style murderers on the other. The Ndembu diviner uses the fall of symbolic figurines or images, and the canny questioning of his clients and suspects to pierce the veil of deceit and reveal the sorcerer or witch. Hercule Poirot uses chance clues, questioning, and his intuition to identify the murderer. Both (...) processes culminate in the binding up of an evil, or at least the yearned for revelation of its source. As such they supply a form of purgation or cure to their respective congregations or guilds of readers. When the practices of diviner and detective are compared at an archetypal level, a universal dramatic pattern or model emerges which reveals that the adventitious clues commonly powering the modern detective narrative along, could have developed from what was, or still is in Africa, the old axiomatic belief that an African god is manipulating the images of divination. (shrink)

This article attempts to respond to Simon Critchley's claim in a recent debate with Richard Rorty, that the latter, by not fully recognizing its indebtedness to Levinas, misunderstands the political import of the work of Jacques Derrida. I maintain, pace Critchley, that trying to push the Derrida-Levinas connection too far will not only further compound Rorty's view of Derrida as a thinker devoid of political efficacy, but that it will moreover serve to obscure the significant differences which exist between Levinas (...) and Derrida - differences which cannot be overlooked in any serious discussion of the two thinkers in question. In the second half, I try to convince Critchley that what separates Derrida from Levinas is precisely what hooks him up with Rorty at a political level. Both, I argue, are committed to a civic religion of social hope. In so doing, I try to convince Rorty that his caricature of Derrida as a private writer without political consequence, ought now to be seriously reconsidered. Key Words: community • Critchley • democracy • Derrida • ethics • justice • law • Levinas • politics • religion • Rorty • sentiment • singularity • social hope. (shrink)

This study examines the relationship between corporate diversification strategy and the pollution activity of subsidiaries within the U.S. chemical industry using TRI data (EPA's Toxic Release Inventory). The subsidiaries of conglomerates were found to exhibit higher pollution levels for direct emissions than those of firms pursuing more related diversification strategies. Additionally, the subsidiaries of conglomerates exhibited more variance in overall pollution emissions compared to related diversified firms.

Wheeler's contribution in this unique partnership gives a woman's consciousness to the philosophy of sexual equality.

In June 2021, Missouri passed the “Second Amendment Preservation Act” (SAPA). Though SAPA passed easily and had gubernatorial support, many Missouri law enforcement agencies, including the Missouri Sheriff’s Association, oppose it. Missing from this policy conversation, and deserving of analysis, is the voice of Missouri citizens. Using qualitative interview data and survey data, we explored what if anything Missouri gun owners knew about SAPA and what they perceived its effects would be on gun-related murders, suicides, gun thefts, and mass shootings. (...) Most Missouri gun owners had not heard about SAPA and were ambivalent about its potential effect on gun safety outcomes. Our findings also indicate that respondents’ attitudes toward SAPA and the impact of such policy on safety is driven by gun ownership (i.e., primary versus living in a household with firearms), partisan identification, and attitudes toward government firearm regulation. (shrink)

For more than forty years Jacques Derrida has attempted to unsettle and disturb the presumptions underlying many of our most fundamental philosophical, political, and ethical conventions. In The Philosophy of Derrida, Mark Dooley examines Derrida's large body of work to provide an overview of his core philosophical ideas and a balanced appraisal of their lasting impact. One of the author's primary aims is to make accessible Derrida's writings by discussing them in a vernacular that renders them less opaque and (...) nebulous. Derrida's unusual writing style, which mixes literary and philosophical vocabularies, is shown to have hindered their interpretation and translation. Dooley situates Derrida squarely in the tradition of historicist, hermeneutic and linguistic thought, and Derrida's objectives and those of "deconstruction" are rendered considerably more convincing. While Derrida's works are ostensibly diverse, Dooley reveals an underlying cohesion to his writings. From his early work on Husserl, Hegel and de Saussure, to his most recent writings on justice, hospitality and cosmopolitanism, Derrida is shown to have been grappling with the vexed question of national, cultural and personal identity and asking to what extent the notion of a "pure" identity has any real efficacy. Viewed from this perspective Derrida appears less as a wanton iconoclast, for whom deconstruction equals destruction, but as a sincere and sensitive writer who encourages us to shed light on out historical constructions so as to reveal that there is much about ourselves that we do not know. (shrink)

Brill’s Companion to Renaissance Astrology brings together a wide array of expertise from around the globe to explain the method and matter of this unique cultural form, summarizing the current state of research and suggesting new paths.