The Common Anatomy Reference Ontology (CARO) is being developed to facilitate interoperability between existing anatomy ontologies for different species, and will provide a template for building new anatomy ontologies. CARO has a structural axis of classification based on the top-level nodes of the Foundational Model of Anatomy. CARO will complement the developmental process sub-ontology of the GO Biological Process ontology, using it to ensure the coherent treatment of developmental stages, and to provide a common framework for the model organism communities (...) to classify developmental structures. Definitions for the types and relationships are being generated by a consortium of investigators from diverse backgrounds to ensure applicability to all organisms. CARO will support the coordination of cross-species ontologies at all levels of anatomical granularity by cross-referencing types within the cell type ontology (CL) and the Gene Ontology (GO) Cellular Component ontology. A complete cross-species CARO could be utilized in other ontologies for cross-product generation. (shrink)

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)

The past two decades have seen an explosion in the methods and directions of neuroscience research. Along with many others, complexity research has rapidly gained traction as both an independent research field and a valuable subdiscipline in computational neuroscience. In the past decade alone, several studies have suggested that psychiatric disorders affect the spatiotemporal complexity of both global and region-specific brain activity (Liu et al., 2013;Adhikari et al., 2017;Li et al., 2018). However, many of these studies have not accounted for (...) the distributed nature of cognition in either the global or regional complexity estimates, which may lead to erroneous interpretations of both global and region-specific entropy estimates. To alleviate this concern, we propose a novel method for estimating complexity. This method relies upon projecting dynamic functional connectivity into a low-dimensional space which captures the distributed nature of brain activity. Dimension-specific entropy may be estimated within this space, which in turn allows for a rapid estimate of global signal complexity. Testing this method on a recently acquired obsessive-compulsive disorder dataset reveals substantial increases in the complexity of both global and dimension-specific activity versus healthy controls, suggesting that obsessive-compulsive patients may experience increased disorder in cognition. To probe the potential causes of this alteration, we estimate subject-level effective connectivityviaa Hopf oscillator-based model dynamic model, the results of which suggest that obsessive-compulsive patients may experience abnormally high connectivity across a broad network in the cortex. These findings are broadly in line with results from previous studies, suggesting that this method is both robust and sensitive to group-level complexity alterations. (shrink)

1 Evidence-based policy requires researchers to provide the answers to ecological questions that are of interest to policy makers. To find out what those questions are in the UK, representatives from 28 organizations involved in policy, together with scientists from 10 academic institutions, were asked to generate a list of questions from their organizations. 2 During a 2-day workshop the initial list of 1003 questions generated from consulting at least 654 policy makers and academics was used as a basis for (...) generating a short list of 100 questions of significant policy relevance. Short-listing was decided on the basis of the preferences of the representatives from the policy-led organizations. 3 The areas covered included most major issues of environmental concern in the UK, including agriculture, marine fisheries, climate change, ecosystem function and land management. 4 The most striking outcome was the preference for general questions rather than narrow ones. The reason is that policy is driven by broad issues rather than specific ones. In contrast, scientists are frequently best equipped to answer specific questions. This means that it may be necessary to extract the underpinning specific question before researchers can proceed. 5 Synthesis and applications. Greater communication between policy makers and scientists is required in order to ensure that applied ecologists are dealing with issues in a way that can feed into policy. It is particularly important that applied ecologists emphasize the generic value of their work wherever possible. (shrink)

Symposium discussion on Todd Moody's `Conversations with Zombies' , by Owen Flanagan, Thomas Polger, Daniel C. Dennett, Guven Guzeldere, Jaron Lanier, John McCarthy, Selmer Bringsjord, Mary Midgley, Avshalom C. Elitzur, Keith Chandler, David Hodgson and Charles T. Tart, with response from Todd C. Moody.

In this lengthy book, Daniel Sutherland proposes to rectify our long neglect of Kant's theory of mathematics by means of both historical and systematic analyses. This is a worthy undertaking, since the scope and significance of that theory were lost from view during the twentieth century.

This third installment in David Breed's intellectual biography of Ralph Wendell Burhoe focuses upon the impact of his thought on the Unitarian Universalist Association and that group's role in Burhoe's career. Dana McLean Greeley, elected president of the American Unitarian Association in 1958, was a key figure in Burhoe's eventual participation in the project, “The Free Church in a Changing World.” Burhoe's emphasis on the need for doctrine that could communicate religious wisdom in terms of science stood in tension (...) with free‐church tradition. Nevertheless, the section of the project's final report, titled “Theology and the Frontiers of Learning,” largely accepted Burhoe's program for a new natural theology based on science. This project brought Burhoe's program to the attention of the denomination and led to the invitation in 1964 from Malcolm Sutherland, on behalf of Meadville/Lombard Theological School in Chicago, of which he was president, for Burhoe to implement his program in the new curriculum of that school. Burhoe accepted. (shrink)

During the Napoleonic Wars there was a shortage of suitable millstones for the British Ordnance gunpowder mills. John MacCulloch spent five summers searching Western Britain for a source of non-siliceous limestones to be used as gunpowder millstones. His search was authorized by the Board of Ordnance, which also paid all his expenses.By 1812 MacCulloch had found suitable limestones in Sutherland, Skye, and at Glen Tilt, but the Board of Ordnance were unable to exploit any of the sources until 1815 (...) when unsuccessful quarries were opened on Skye. After the defeat of Napoleon at Waterloo the British millstone project was abandoned. The military objective of the millstone survey was not achieved, but MacCulloch learned much about the geology of the older rocks of Britain and he built a reputation as an expert geologist through the papers he submitted to the Geological Society of London. (shrink)

A comprehensive analysis of the theories of property developed by four key figures in classical German philosophy that explores such central questions as the nature of property, what specific forms of property are justifiable and whether property rights ought to be respected or limited in the name of freedom.

Right now, you are undergoing the conscious experience of reading this text, combined with a shifting background of sensory, emotional, and cognitive coloring. The conscious experience of the reading, together with the accompanying background feel of sensation, emotion, and thought, make up how things subjectively seem to you, how things appear, as best you can tell, from your own unique point of view. Consciousness is at once acutely familiar-it makes up the experienced moments of your waking (and perhaps your dreaming) (...) life. But consciousness also raises deep and interesting philosophical questions, questions about how any mere physical subject could produce such a wonder, and questions about how there could be a seemingly private and isolated spot of personal subjectivity in an objective, impersonal world. Perhaps the challenge of developing a satisfying theoretical understanding of consciousness is beyond us-we've reached the limits of what we can comprehend. Or maybe today's shortcomings are only temporary barriers to an illuminating theory of consciousness, one properly embedding it in our scientific worldview. And possibly we already have the resources for a satisfactory theory from the way we think about things in commonsense terms. This reader provides an entry point for considering these and related theoretical questions surrounding consciousness. This introductory section begins with a brief background survey of contemporary debates on consciousness. It then provides a characterization of the notion of consciousness at issue, and considers why consciousness understood this way might be theoretically problematic. It follows with a survey of some of the major theoretical positions on consciousness, and it closes with a synopsis of the sections of the book. (shrink)

I provide a fairly systematic analysis of when quantities that are variant under a dynamical symmetry transformation should be regarded as unobservable, or redundant, or unreal; of when models related by a dynamical symmetry transformation represent the same state of affairs; and of when mathematical structure that is variant under a dynamical symmetry transformation should be regarded as surplus. In most of these cases the answer is `it depends': depends, that is, on the details of the symmetry in question. A (...) central feature of the analysis is that in order to draw any of these conclusions for a dynamical symmetry it needs to be understood in terms of its possible extensions to other physical systems, in particular to measurement devices. (shrink)

We call beliefs reasonable or unreasonable, justified or unjustified. What does this imply about belief? Does this imply that we are responsible for our beliefs and that we should be blamed for our unreasonable convictions? Or does it imply that we are in control of our beliefs and that what we believe is up to us? Reason Without Freedom argues that the major problems of epistemology have their roots in concerns about our control over and responsibility for belief. David (...) Owens focuses on the arguments of Descartes, Locke and Hume - the founders of epistemology - and presents a critical discussion of the current trends in contemporary epistemology. He proposes that the problems we confront today - scepticism, the analysis of knowlege, and debates on epistemic justification - can be tackled only once we have understood the moral psychology of belief. This can be resolved when we realise that our responsibility for beliefs is profoundly different from our rationality and agency, and that memory and testimony can preserve justified belief without preserving the evidence which might be used to justify it. Reason Without Freedom should be of value to those interested in contemporary epistemology, philosophy of mind and action, ethics, and the history of 17th and 18th century. (shrink)

Get organizational results by nurturing commitment, integrity, and transparency. A healthy corporate culture is the secret to an organization's performance. The good news is that employees already embody the values needed to propel the organization to its goals, but institutional roadblocks get in the way. All too often leaders don't know how to diagnose their culture in order to clear these roadblocks to performance. The 3 Power Values presents a breakthrough model that permits leaders to measure and manage culture. To (...) create a fully aligned high-performing culture, leaders need only focus on nurturing three catalyst values: Commitment, Integrity, and Transparency. Offers an innovative values-centered model to help organizations achieve short-term goals without sacrificing long-run sustainability Filled with lively case studies of major companies including Johnson & Johnson and Boeing David Gebler is a recognized thought leader in the field of values-based ethics and culture risk management The 3 Power Values offers leaders at all levels a unique and accessible approach to identifying the behavioral challenges that are hindering their corporate culture and to removing them effectively. (shrink)

In The Uses of Argument, Stephen Toulmin proposed a model for the layout of arguments: claim, data, warrant, qualifier, rebuttal, backing. Since then, Toulmin’s model has been appropriated, adapted and extended by researchers in speech communications, philosophy and artificial intelligence. This book assembles the best contemporary reflection in these fields, extending or challenging Toulmin’s ideas in ways that make fresh contributions to the theory of analysing and evaluating arguments.

Fran Brearton: Robert Graves and The White Goddess Joyce Hill: Authority and Intertextuality in the Works of Ælfric Michael Pennington: Barnardine's Straw: The Devil in Shakespeare's Detail David Womersley: Dulness and Pope Terence Cave: Montaigne Lord Moser: The Future of Our Universities Alexander Murray: The Inquisition and the Renaissance Robert Bagley: The Prehistory of Chinese Music Theory Edwin Cameron: Patents and Public Health: Principle, Politics and Paradox Mervyn King: What Fates Impose: Facing Up to Uncertainty Dominic Lieven: Empire, History (...) and the Contemporary Global Order Joan Oates: Archaeology in Mesopotamia: Digging Deeper at Tell Brak Timothy Besley: The New Political Economy Richard Gray: 'They Worship Death Here': William Faulkner, Sanctuary and Hollywood Lord Sutherland: Nomad's Progress James Piscatori: Imagining Pan-Islam: Religious Activism and Political Utopias. (shrink)

Acts are functions from states of nature into finite-support distributions over a set of ‘deterministic outcomes’. We characterize preference relations over acts which have a numerical representation by the functional J(f)=min>∫u∘ f dP¦PϵC where f is an act, u is a von Neumann-Morgenstern utility over outcomes, and C is a closed and convex set of finitely additive probability measures on the states of nature. In addition to the usual assumptions on the preference relation as transitivity, completeness, continuity and monotonicity, we (...) assume uncertainty aversion and certainty-independence. The last condition is a new one and is a weakening of the classical independence axiom: It requires that an act f is preferred to an act g if and only if the mixture of f and any constant act h is preferred to the same mixture of g and h. If non-degeneracy of the preference relation is also assumed, the convex set of priors C is uniquely determined. Finally, a concept of independence in case of a non-unique prior is introduced. (shrink)

Oxford Studies in Ancient Philosophy is a volume of original articles on all aspects of ancient philosophy. The articles may be of substantial length, and include critical notices of major books. From 2000, OSAP is being published not once but twice yearly, to keep up with the abundance of good material submitted; and it is being made available in paperback as well as hardback, in response to demand from scholars wishing to purchase it. This volume, the first of 2000, features (...) contributors from Britain, America, Europe, and Japan contributing pieces on Socrates, Plato, Aristotle, Epicureanism, Pyrrhonism, and the recently discovered papyrus text of Empedocles. (shrink)

This essay proposes recognition theory as a preferred approach to explaining poor women’s puzzling preference for patriarchal subordination even after they have accessed an ostensibly empowering asset: microfinance. Neither the standard account of adaptive preference offered by Martha Nussbaum nor the competing account of constrained rational choice offered by Harriet Baber satisfactorily explains an important variation of what Serene Khader, in discussing microfinance, dubs the self-subordination social recognition paradox. The variation in question involves women who, refusing to reject the combined (...) socio-economic benefits of patriarchal recognition and empowering microfinance, dissemble their subordination to men. In this situation, women experience a genuine form of divided consciousness which recognition theory frames as an identity crisis. Understanding the pathological nature of deceit as a way of life that blurs the boundaries between rational choice and rationalization, recognition theory shows how dissemblance itself is constrained by conflicting recognition orders in ways that prevent women who live such a life from successfully emancipating themselves. In this respect, recognition theory provides an important ---albeit, from the standpoint of recent feminist and intersectional research on identity and autonomy, inadequately qualified---norm of personal integrity and genuine agency requisite for conceptualizing adaptive preferences. (shrink)

This book is an easy to read, yet comprehensive introduction to practical issues in research ethics and scientific integrity. It addresses questions about what constitutes appropriate academic and scientific behaviors from the point of view of what Robert Merton called the “ethos of science.” In other words, without getting into tricky questions about the nature of the good or right (as philosophers often do), Koepsell’s concise book provides an approach to behaving according to the norms of science and academia without (...) delving into the morass of philosophical ethics. The central thesis is that: since we know certain behaviors are necessary for science and its institutions to work properly (rather than pathologically), we can extend those principles to guide good behaviors as scientists and academics. The Spanish version of this book was commissioned by the Mexican National Science Foundation (CONACyT) and is being distributed to and used by Mexican scientists in a unique, national plan to improve scientific integrity throughout all of Mexico. Available now in English, the examples and strategies employed can be used throughout the English speaking research world for discussing issues in research ethics, training for scientists and researchers across disciplines, and those who are generally interested in ethics in academia. (shrink)

The emphasis is always on the arguments used, and the way one position develops from another. By the end of the book the reader is afforded both a grasp of the state of the controversy, and how we got there.

This is the first of David Pears's acclaimed two‐volume work on the development of Wittgenstein's philosophy, covering the pre‐1929 writings. Part I of the first volume consists in a brief but eloquent overview of Wittgenstein's philosophy as a whole; Part II critically examines the earlier system, delineating and evaluating the central ideas (logical atomism, picture theory of meaning, and solipsism) with intellectual rigour and clarity. Pears succeeds in both offering an original realist interpretation of Wittgenstein's earlier thought, one that (...) has found many followers, and in demarcating a structural framework that makes the internal organization of Wittgenstein's philosophy as a whole more accessible. (shrink)

As the need arises at various points in the book, he pursues a variety of related issues and engages additional thinkers--Plato, C. S. Peirce, Darwin, ...

In a final, short summary of his life and works, David Hume wrote My Own Life as he suffered from gastrointestinal issues that ultimately killed him. Despite his bleak prognosis, Hume remains lighthearted and inspirational throughout. He discusses his life growing up, his family relationships, and his desire to constantly improve his works and his reputation as an author. He confesses, "I have suffered very little pain from my disorder; and what is more strange, have... never suffered a moment's (...) abatement of my spirits; insomuch that were I to name the period of my life which I should most choose to pass over again, I might be tempted to point to this later period." This short biography ends with a series of letters from Hume's close friend and fellow author Adam Smith to their publisher William Strahan, recounting Hume's death and giving a stirring eulogy in honor of their friend. (shrink)

Hegel's Elements of the Philosophy of Right, one of the classic texts of German Idealism, is a seminal work of legal, social and political philosophy that has generated very different interpretations since its publication in 1821. Written with the advantage of historical distance, the essays in this volume adopt a fresh perspective that makes readers aware of the breadth and depth of this classic work. The themes of the essays reflect the continuing relevance of the text, and include Hegel's method, (...) the concept of property, Hegel's view of morality, the concept of Sittlichkeit, the modern family, the nature and tensions of civil society, and the question of the modernity of the Hegelian state. The volume will be of interest to all scholars and students of German Idealism and the history of political thought. (shrink)

NGC 1300 (shown in figure 1) is a spiral galaxy 65 million light years from Earth.1 We have never been there, and (although I would love to be wrong about this) we will never go there; all we will ever know about NGC 1300 is what we can see of it from sixty-five million light years away, and what we can infer from our best physics. Fortunately, “what we can infer from our best physics” is actually quite a lot. To (...) take a particular example: our best theory of galaxies tells us that that hazy glow is actually made up of the light of hundreds of billions of stars; our best theories of planetary formation tell us that a sizable fraction of those stars.. (shrink)