An ontologically founded architecture for information systems in clinical and epidemiological research

This paper presents an ontologically founded basic architecture for information systems, which are intended to capture, represent, and maintain metadata for various domains of clinical and epidemiological research. Clinical trials exhibit an important basis for clinical research, and the accurate specification of metadata and their documentation and application in clinical and epidemiological study projects represents a significant expense in the project preparation and has a relevant impact on the value and quality of these studies

A pattern-based approach to a cell tracking ontology

Time-lapse microscopy has thoroughly transformed our understanding of biological motion and developmental dynamics from single cells to entire organisms. The increasing amount of cell tracking data demands the creation of tools to make extracted data searchable and interoperable between experiment and data types. In order to address that problem, the current paper reports on the progress in building the Cell Tracking Ontology (CTO): An ontology framework for describing, querying and integrating data from complementary experimental techniques in the domain of cell tracking experiments. CTO is based on a basic knowledge structure: the cellular genealogy serving as a backbone model to integrate specific biological ontologies into tracking data. As a first step we integrate the Phenotype and Trait Ontology (PATO) as one of the most relevant ontologies to annotate cell tracking experiments. The CTO requires both the integration of data on various levels of generality as well as the proper structuring of collected information. Therefore, in order to provide a sound foundation of the ontology, we have built on the rich body of work on top-level ontologies and established three generic ontology design patterns addressing three modeling challenges for properly representing cellular genealogies, i.e. representing entities existing in time, undergoing changes over time and their organization into more complex structures such as situations

Perceptual Characterization: On Perceptual Learning and Perspectival Sedimentation

In her analysis of perspectival effects on perception, Susanna Siegel has argued that perceptual experience is directly rationally assessable and can thereby justify perceptual beliefs, save for in cases of epistemic downgrade or perceptual hijacking; I contend that the recalcitrance of known illusions poses an insurmountable problem for Siegel’s thesis. In its place, I argue that a model of perceptual learning informed by the dual-aspect framework of base-level cognitive architecture proposed by Elisabeth Camp successfully answers the questions motivating Siegel’s project in a manner that avoids such issues

Metaontology

The Ontological Question 'What exists?' dates back over two thousand five hundred years to the dawn of Western philosophy, and attempts to answer it define the province of ontology. The history of the Western philosophical tradition itself has been one of the differentiation and separation of the various sciences from the primordial stuff of ancient philosophy. Physics was first to break away from the tutelage of philosophy and established its independence in the seventeenth century. The other sciences followed suit fairly rapidly, with perhaps psychology being the last to separate. The results for modern philosophy - of this breakup of what was once a great empire over human reason - have been mixed. An inevitable result has been that questions considered in ancient times to belong to philosophy have fallen within the ambit of other disciplines. So speculations about the material composition and genesis of the universe that interested Thales, Heraclitus and Leucippus, are continued by contemporary cosmologists in well equipped research laboratories, and not by philosophers. However ontology, unlike cosmology, has not broken away from its parent discipline and the Ontological Question as to what exists is still argued by philosophers today. That ontology has failed to make the separation that cosmology has, is a reflection on the weakness of the methodology for settling ontological arguments. Unlike their great Rationalist predecessors, most modern philosophers do not believe that logic alone is sufficient to provide an answer as to what is. But neither do observation or experiment, in any direct way, seem to help us in deciding, for example, whether sets or intentions should be admitted to exist or not. In consequence, the status of ontology as an area of serious study has to depend on the devising of a methodology within which the Ontological Question can be tackled. The pursuit of such a methodology is the concern of metaontology and is also the concern of this thesis

The syntax and semantics of degree expressions in Spanish

This article provides an overview of the syntax and semantics of degree in Spanish, eventually suggesting that degree structure should be viewed as equivalent to aspect in the verbal domain. §1 introduces several of the themes that will be discussed in the article, while §2 introduces the semantics of degree. §3 discusses the basic syntactic properties of degree, particularly with adjectives. §4 introduces the notion of scale, which we will argue should correspond to Aktionsart in the verbal domain. §5 analyses positive degree, and explains how it differs from a scale both in syntax and in semantics. §6-§8 discuss comparative and superlative degrees, first their morphological facts (§6), then the specific properties of comparatives (§7) and finally those of superlatives (§8). The article ends with some conclusions in §9

A Schrift to Fest Kyle Johnson

This volume of forty-three papers celebrates Kyle Johnson\u27s contribution to linguistics. Written by Johnson’s colleagues and former students, the papers touch upon topics that have defined Johnson’s career, including verb movement, ellipsis, gapping, Germanic, extraposition, quantifiers and determiners, object positions, among others.https://scholarworks.umass.edu/linguist_oapubs/1000/thumbnail.jp