The Information Artifact Ontology (IAO) was created to serve as a domain‐neutral resource for the representation of types of information content entities (ICEs) such as documents, data‐bases, and digital im‐ages. We identify a series of problems with the current version of the IAO and suggest solutions designed to advance our understanding of the relations between ICEs and associated cognitive representations in the minds of human subjects. This requires embedding IAO in a larger framework of ontologies, including most importantly the Mental (...) Func‐tioning Ontology (MFO). It also requires a careful treatment of the aboutness relations between ICEs and associated cognitive representa‐tions and their targets in reality, which implies in turn a new treatment of the relation of truthmaking. (shrink)

Philosophers of science traditionally have ignored the details of scientific research, and the result has often been theories that lack relevance either to science or to philosophy in general. In this volume, leading philosophers of biology discuss the limitations of this tradition and the advantages of the "naturalistic turn"—the idea that the study of science is itself a scientific enterprise and should be conducted accordingly. This innovative book presents candid, informal debates among scholars who examine the benefits and problems of (...) studying science in the same way that scientists study the natural world. Callebaut achieves the effect of face-to-face engagement through separate interviews with participants. Contributors include William Bechtel, Robert Brandon, Richard M. Burian, Donald T. Campbell, Patricia Churchland, Jon Elster, Ronald N. Giere, David L. Hull, Philip Kitcher, Karin Knorr Cetina, Bruno Latour, Richard Levins, Richard C. Lewontin, Elisabeth Lloyd, Helen Longino, Thomas Nickles, Henry C. Plotkin, Robert J. Richards, Alexander Rosenberg, Michael Ruse, Dudley Shapere, Elliott Sober, Ryan Tweney, and William Wimsatt. "Why can't we have both theoretical ecology and natural histories, lovingly done?"—Philip Kitcher "Don't underestimate the arrogance of philosophers!"—Elisabeth Lloyd. (shrink)

The goal of referent tracking is to create an ever-growing pool of data relating to the entities existing in concrete spatiotemporal reality. In the context of Electronic Healthcare Records (EHRs) the relevant concrete entities are not only particular patients but also their parts, diseases, therapies, lesions, and so forth, insofar as these are salient to diagnosis and treatment. Within a referent tracking system, all such entities are referred to directly and explicitly, something which cannot be achieved when familiar concept-based systems (...) are used in what is called “clinical coding”. In this paper we describe the components of a referent tracking system in an informal way and we outline the procedures that would have to be followed by healthcare personnel in using such a system. We argue that the referent tracking paradigm can be introduced with only minor – though nevertheless ontologically important – technical changes to existing EHR infrastructures, but that it will require a radically different mindset on the part of those involved in clinical coding and terminology development from that which has prevailed hitherto. (shrink)

Big data biology—bioinformatics, computational biology, systems biology (including ‘omics’), and synthetic biology—raises a number of issues for the philosophy of science. This article deals with several such: Is data-intensive biology a new kind of science, presumably post-reductionistic? To what extent is big data biology data-driven? Can data ‘speak for themselves?’ I discuss these issues by way of a reflection on Carl Woese’s worry that “a society that permits biology to become an engineering discipline, that allows that science to slip into (...) the role of changing the living world without trying to understand it, is a danger to itself.” And I argue that scientific perspectivism, a philosophical stance represented prominently by Giere, Van Fraassen, and Wimsatt, according to which science cannot as a matter of principle transcend our human perspective, provides the best resources currently at our disposal to tackle many of the philosophical issues implied in the modeling of complex, multilevel/multiscale phenomena. (shrink)

While classifications of mental disorders have existed for over one hundred years, it still remains unspecified what terms such as 'mental disorder', 'disease' and 'illness' might actually denote. While ontologies have been called in aid to address this shortfall since the GALEN project of the early 1990s, most attempts thus far have sought to provide a formal description of the structure of some pre-existing terminology or classification, rather than of the corresponding structures and processes on the side of the patient. (...) We here present a view of mental disease that is based on ontological realism and which follows the principles embodied in Basic Formal Ontology and in the application of BFO in the Ontology of General Medical Science. We analyzed statements about what counts as a mental disease provided in the research agenda for the DSM-V, and in Pies' model. The results were used to assess whether the representational units of BFO and OGMS were adequate as foundations for a formal representation of the entities in reality that these statements attempt to describe. We then analyzed the representational units specific to mental disease and provided corresponding definitions. Our key contributions lie in the identification of confusions and conflations in the existing terminology of mental disease and in providing what we believe is a framework for the sort of clear and unambiguous reference to entities on the side of the patient that is needed in order to avoid these confusions in the future. (shrink)

Based on the Ontology for General Medical Science, we propose definitions for biomarkers of various types of. These definitions provide not only a complete formal representation of what biomarkers are according to the Institute of Medicine (IOM), but also remove the ambiguities and inconsistencies encountered in the documentation provided by the IOM.

English Summary: Although most religions claim peace as a goal to pursue, religions have been used as justification for violence again and again. Since September 11th, 2001 the Western and Eastern world has been confronted again with violence in the name of religion. As a fundamentalist understanding of religion is a fruitful basis for war and terror, it is essential to empower the liberal movements in the world religions, to support a peaceful community of people from different cultures and religions. (...) Therefore, it is of central importance for our own religious self-concept how faith and reason can be combined to make it possible to feel at home in our own religion and to welcome a pluralistic society. German description: Obwohl in den meisten Religionen Frieden als anzustrebendes Ziel gilt, wurden Religionen immer wieder zur Legitimation von Gewalt genutzt. Seit den Ereignissen des 11. September 2001 ist die westliche und ostliche Welt erneut konfrontiert mit der Gewalt im Namen der Religion. Insofern ein fundamentalistisches Religionsverstandnis den Nahrboden fur Krieg und Terror bildet, kommt es darauf an, die liberalen Krafte und Stromungen in den Weltreligionen zu starken, um ein friedliches Zusammenleben von Angehorigen verschiedener Kulturen und Religionen zu fordern. Fur das eigene religiose Selbstverstandnis ist daher von zentraler Bedeutung, wie Glaube und Vernunft so aufeinander bezogen werden konnen, dass es moglich ist, sowohl in der eigenen Religion beheimatet zu sein als auch die pluralistische Gesellschaft zu bejahen. Mit Beitragen von Michael Grossmann, Rabeya Muller, Wolfgang Pfuller, Andreas Rossler, Arnulf von Scheliha, Christian Wiese, Hans-Georg Wittig, Werner Zager und Ingo J. Zollich. (shrink)

There are many things that philosophy of biology might be. But, given the existence of a professional philosophy of biology that is arguably a progressive research program and, as such, unrivaled, it makes sense to define philosophy of biology more narrowly than the totality of intersecting concerns biologists and philosophers (let alone other scholars) might have. The reasons for the success of the “new” philosophy of biology remain poorly understood. I reflect on what Dutch and Flemish, and, more generally, European (...) philosophers of biology could do to improve the situation of their discipline locally, regionally, and internationally, paying particular attention to the lessons to be learned from the “Science Wars.”. (shrink)

Electronic Health Records (EHRs) are organized around two kinds of statements: those reporting observations made, and those reporting acts performed. In neither case does the record involve any direct reference to what such statements are actually about. They record not: what is happening on the side of the patient, but rather: what is said about what is happening. While the need for a unique patient identifier is generally recognized, we argue that we should now move to an EHR regime in (...) which all clinically salient particulars – from the concrete disorder on the side of the patient and the body parts in which it occurs to the concrete treatments given – should be uniquely identified. This will allow us to achieve interoperability among different systems of records at the level where it really matters: in regard to what is happening in the real world. It will also allow us to keep track of particular disorders and of the effects of particular treatments in a precise and unambiguous way. We discuss the ontological and epistemological aspects of our claim and describe a scenario for implementation within EHR systems. (shrink)

The goal of the OBO (Open Biomedical Ontologies) Foundry initiative is to create and maintain an evolving collection of non-overlapping interoperable ontologies that will offer unambiguous representations of the types of entities in biological and biomedical reality. These ontologies are designed to serve non-redundant annotation of data and scientific text. To achieve these ends, the Foundry imposes strict requirements upon the ontologies eligible for inclusion. While these requirements are not met by most existing biomedical terminologies, the latter may nonetheless support (...) the Foundry’s goal of consistent and non-redundant annotation if appropriate mappings of data annotated with their aid can be achieved. To construct such mappings in reliable fashion, however, it is necessary to analyze terminological resources from an ontologically realistic perspective in such a way as to identify the exact import of the ‘concepts’ and associated terms which they contain. We propose a framework for such analysis that is designed to maximize the degree to which legacy terminologies and the data coded with their aid can be successfully used for information-driven clinical and translational research. (shrink)

The paradigm of referent tracking is based on a realist presupposition which rejects so-called negative entities (congenital absent nipple, and the like) as spurious. How, then, can a referent tracking-based Electronic Health Record deal with what are standardly called ‘negative findings’? To answer this question we carried out an analysis of some 748 sentences drawn from patient charts and containing some form of negation. Our analysis shows that to deal with these sentences we need to introduce a new ontological relationship (...) between a particular and a universal, which holds when no instance of the universal has a specific qualified ontological relation with the particular. This relation is found to be able to accommodate nearly all occurrences of negative findings in the examined sample, in ways which involve no reference to negative entities. (shrink)

DieVorlesung über Moralphilosophie aus den 1770er Jahren ist eine wichtige Erläuterung und Ergänzung zur Grundlegung der Metaphysik der Sittenvon 1785. Die Neuedition der so genannten Menzer-Vorlesung präsentiert diese Vorlesung auf dem aktuellen Stand der Forschung. Zugrunde gelegt ist die Nachschrift Kaehler, die seit 1997 zum Kant-Archiv in Marburg gehört. Abgeglichen ist der Text mit mehreren Handschriften des Archivs der Berlin-Bandenburgischen Akademie der Wissenschaften und der Staatsbibliothek Berlin. Ein Anhang mit textkritischem Apparat und Erläuterungen zu Literatur und Personen sowie eine Einleitung (...) von Manfred Kühn erschließen die Vorlesung für alle, die sich für die Kant'sche Philosophie der Ethik interessieren. (shrink)

According to Kant, as far as the realisation of humanity is concerned, man is dependent on knowledge. But which science guarantees him an insight into what it means to be a human being? Philosophy? Anthropology? Philosophical anthropology? This study’s problem-oriented development of the question: ‘What is man?’ deals with the anthropological concepts of Scheler, Plessner, Portmann and Gehlen, drawing on the insights of classical philosophy. The focus of its critique is the biologism that is symptomatic of the failure of the (...) attempt to clarify the nature of man in comparative distinction to the form of existence of the animal. With reference to Herder, who understands man as a linguistic being, this book outlines the first steps on the path to overcoming the programme of modern anthropology through a form of ‘philosophy from language’. (shrink)

Sind wir in unserem Denken, Entscheiden und Handeln frei? Diese Frage beschäftigt Menschen nicht erst seit der neueren Hirnforschung. Bereits die Römer kennen die Vorstellung eines willentlich handelnden Subjekts und haben daher den Begriff des Willens (voluntas) geprägt. Und auch die biblische Tradition von den Geboten Gottes, die der Mensch befolgen soll, legte einen solchen Gedanken nahe. Aus diesen Überlieferungssträngen schöpfend, verfasste der Kirchenvater Augustin seine Schrift De libero arbitrio (Über den freien Willen). Durch die weitere Theologie- und Philosophiegeschichte zieht (...) sich dann die Auseinandersetzung darüber, in welchem Mass der menschliche Wille frei bzw. unfrei ist. So bestritt etwa Luther gegen Erasmus die Willensfreiheit in Fragen des Heils. Die Beiträge des Bandes bedenken das Thema der Willensfreiheit jedoch nicht nur in theologischer und philosophischer Hinsicht, sondern beziehen auch biologische, psychologische und ethische Perspektiven mit ein, die den gegenwärtig geführten Debatten verpflichtet sind."-- Back cover. (shrink)

Keine ausführliche Beschreibung für "Die bürgerliche Welt" verfügbar.

If SNOMED CT is to serve as a biomedical reference terminology, then steps must be taken to ensure comparability of information formulated using successive versions. New releases are therefore shipped with a history mechanism. We assessed the adequacy of this mechanism for its treatment of the distinction between changes occurring on the side of entities in reality and changes in our understanding thereof. We found that these two types are only partially distinguished and that a more detailed study is required (...) to propose clear recommendations for enhancement along at least the following lines: (1) explicit representation of the provenance of a class; (2) separation of the time-period during which a component is stated valid in SNOMED CT from the period it is (or has been) valid in reality, and (3) redesign of the historical relationships table to give users better assistance for recovery in case of introduced mistakes. (shrink)

The integration of information resources in the life sciences is one of the most challenging problems facing bioinformatics today. We describe how Language and Computing nv, originally a developer of ontology-based natural language understanding systems for the healthcare domain, is developing a framework for the integration of structured data with unstructured information contained in natural language texts. L&C’s LinkSuite™ combines the flexibility of a modular software architecture with an ontology based on rigorous philosophical and logical principles that is designed to (...) comprehend the basic formal relationships that structure both reality and the ways humans perceive and communicate about reality. (shrink)