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New desiderata for biomedical terminologies

In Katherine Munn & Barry Smith (eds.), Applied Ontology: An Introduction. Frankfurt: ontos. pp. 83-109 (2008)

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  1. Mapping the Patient’s Experience: An Applied Ontological Framework for Phenomenological Psychopathology.Rasmus Rosenberg Larsen & Janna Hastings - 2020 - Phenomenology and Mind 18:200-219.
    Mental health research faces a suite of unresolved challenges that have contributed to a stagnation of research efforts and treatment innovation. One such challenge is how to reliably and validly account for the subjective side of patient symptomatology, that is, the patient’s inner experiences or patient phenomenology. Providing a structured, standardised semantics for patient phenomenology would enable future research in novel directions. In this contribution, we aim at initiating a standardized approach to patient phenomenology by sketching a tentative formalisation within (...)
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  • An ontology-based methodology for the migration of biomedical terminologies to electronic health records.Barry Smith & Werner Ceusters - 2005 - In Smith Barry & Ceusters Werner (eds.), Proceedings of AMIA Symposium 2005, Washington DC,. AMIA. pp. 704-708.
    Biomedical terminologies are focused on what is general, Electronic Health Records (EHRs) on what is particular, and it is commonly assumed that the step from the one to the other is unproblematic. We argue that this is not so, and that, if the EHR of the future is to fulfill its promise, then the foundations of both EHR architectures and biomedical terminologies need to be reconceived. We accordingly describe a new framework for the treatment of both generals and particulars in (...)
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  • Coordination Instead of Consensus Classification: Insights from Systematics for Bio-Ontologies.Beckett Sterner, Joeri Witteveen & Nico Franz - forthcoming - History and Philosophy of the Life Sciences.
    Big data is opening new angles on old questions about scientific progress. Is scientific knowledge cumulative? If yes, how does it make progress? In the life sciences, what we call the Consensus Principle has dominated the design of data discovery and integration tools: the design of a formal classificatory system for expressing a body of data should be grounded in consensus. Based on current approaches in biomedicine and systematic biology, we formulate and compare three types of the Consensus Principle: realist, (...)
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  • Coordinating dissent as an alternative to consensus classification: insights from systematics for bio-ontologies.Beckett Sterner, Joeri Witteveen & Nico Franz - 2020 - History and Philosophy of the Life Sciences 42 (1):1-25.
    The collection and classification of data into meaningful categories is a key step in the process of knowledge making. In the life sciences, the design of data discovery and integration tools has relied on the premise that a formal classificatory system for expressing a body of data should be grounded in consensus definitions for classifications. On this approach, exemplified by the realist program of the Open Biomedical Ontologies Foundry, progress is maximized by grounding the representation and aggregation of data on (...)
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