James Matthew Fielding's research while affiliated with Université de Paris 1 Panthéon-Sorbonne and other places

Publications (14)

Article
Biomedical software ontologies provide a means for the representation of facts gathered through biomedical research and clinical observation. At the foundation of good software ontology design lays a sound philosophical realism that supplies the basic framework required to support the computable management of this information correctly and consiste...
Article
We would first of all like to thank Thor Grünbaum and Andrea Raballo for their thoughtful and lively commentary on our work. We would also like to thank Daniel Rubin for taking this opportunity to describe in detail some of the research carried out in this domain since our paper was first written. Although their commentaries may seem to fall on opp...
Article
Biomedical ontologies define entities and relations in order to represent knowledge in the biomedical domain. In addition, many ontologies further represent supplementary knowledge by linking terms from an external controlled vocabulary to the entities defined within the ontology itself. In this paper we concentrate on the domain of medical imaging...
Article
The central hypothesis underlying this communication is that the methodology and conceptual rigor of a philosophically inspired formal ontology can bring significant benefits in the development and maintenance of application ontologies [A. Flett, M. Dos Santos, W. Ceusters, Some Ontology Engineering Procedures and their Supporting Technologies, EKA...
Article
In this paper we isolate four diagnostic models in radiology and define a set of diagnostic relations corresponding to each clinical situation. To achieve this, we describe a set of general formal ontological notions, as well as the ontological model of the imaging domain we employed in our analysis. On the basis of our results, we conclude that th...
Conference Paper
Biomedical ontologies define entities and relations in order to represent knowledge in the biomedical domain. In this paper we concentrate on the domain of medical imaging. In previous work, we analyzed a representative sample of computed tomography reports in order to determine to which entities and relations the terms used in such reports refer (...
Conference Paper
PURPOSE The RSNA is developing a lexicon (RadLex) to unify radiological terms and to facilitate indexing and retrieving of radiological information sources. The purpose of this study was to evaluate which quantity of radiological terms found in thoracic computer-tomography (CT) reports could be matched against RadLex terms and to quantify the use o...
Article
Full-text available
Software application ontologies have the potential to become the keystone in state-of-the-art information management techniques. It is expected that these ontologies will support the sort of reasoning power required to navigate large and complex terminologies correctly and efficiently. Yet, there is one problem in particular that continues to stand...
Conference Paper
Full-text available
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...
Article
Full-text available
this paper we describe how this standardization has already led to an improvement in the LinKBase structure that allows for a greater degree of internal coherence than ever before possible. We then show the use of this philosophical standardization for the purpose of mapping external databases to one another, using LinKBase as translation hub, with...
Article
Full-text available
Software application ontologies have the potential to become the keystone in state-of-the-art information management techniques. It is expected that these ontologies will support the sort of reasoning power required to navigate large and complex terminologies correctly and efficiently. Yet, there is one problem in particular that continues to stand...
Conference Paper
Full-text available
Software application ontologies have the potential to become the keystone in state-of-the-art information management techniques. It is expected that these ontologies will support the sort of reasoning power required to navigate large and complex terminologies correctly and efficiently. Yet, there is one problem in particular that continues to stand...
Article
Full-text available
The central hypothesis of the collaboration between Language and Computing ,(L&C) and the Institute for Formal Ontology and Medical Information Science (IFOMIS) is that the metho- dology,and conceptual ,rigor of a ,philosophically inspired formal,ontology ,will greatly benefit software ,application ontologies. To this end LinKBase®, L&C’s ontology,...

Citations

... • there is an inconsistent reading of statements with respect to existential or universal quantification [35], • ontology and epistemology are mixed together in inappropriate ways [36]. ...
... Formal Representation of Knowledge is about building real world models of a certain domain or problem, and it enables reasoning and automatic interpretation (Fielding et al., 2004). These formal models, called ontologies, can be used in order to offer formal semantics (i.e. machine interpretable concepts) of every kind of information: database, catalogs, documents and web pages. ...
... 4 It is also an intent to return to a pre-Cartesian era through a more holistic mind-body The general aim of functional neuroimaging studies in pathology is to identify the circuits that serve as the site of the disordered brain functions underlying abnormal cognition or behavior associated with the conditions that can facilitate the transformation of these subjective experiences into the objectively observable signs of the disorders. 11,12 Several recent studies have used functional brain imaging techniques in the attempt to identify specific neural correlates associated with conversion symptoms, the review of which is given in the following section. ...
... In this paper, we focus on descriptive domains, where most information is mostly available in natural language (NL) form and comes parallel, i.e., the same objects or phenomena are described in multiple freestyled documents [3]. To some extent, the Web itself is a huge source of parallel descriptions. ...
... Una distinción similar a la de objetos y procesos, bajo las denominaciones de "endurants" y "perdurants", se encuentra enBittner & Smith (2004);Simon & Smith (2004);Smith (2005bSmith ( , 2005a. ...
... According to Guizzardi et al. [9], the use of foundational concepts that take truly ontological issues seriously is becoming more and more accepted in the ontological engineering literature. In addition, the authors state that, in order to represent a complex domain, one should rely on engineering tools (e.g., design patterns), modeling languages, and methodologies that are based on well-founded ontological theories in the philosophical sense (see [17,18], for instance). Especially in complex domains – i.e., domains with complex concepts, relations, and constraints – and in domains with potentially serious risks of interoperability problems (the domain specified in the ITU-T Recommendation G.805 fits in both cases), a supporting ontology engineering approach should be able to: a. allow the conceptual modelers and domain experts to be explicit, regarding their ontological commitments, which enables them to expose subtle distinctions between models to be integrated and to minimize the chances of running into a False Agreement Problem [19]; b. support the user in justifying their modeling choices and providing a sound design rationale for choosing how the elements in the universe of discourse should be modeled in terms of language elements [9]. ...
... The reason for this is to reutilise existing medical background knowledge formalised in such ontologies as the FMA (Rosse and Mejino, 2007) and terminologies as RadLex (Langlotz, 2006) and ICD-10. Different studies, e.g., or Marwede and Fielding (2007), came to the conclusion that biomedical ontologies and terminologies are applicable for indexing medical knowledge such as CT scans of the brain or radiograph reports of the shoulder. Annotations of medical data are stored as instances of well-defined OWL classes. ...
... Publicly available de-identified clinical data sets are now increasingly available for researchers. Community-wide standards for tagging and representation of NLP semantic constituents (e.g., concepts and relations) are being actively defined [10][11][12][13][14][15]. Cooperative publicly available toolkits and development environments are actively being contributed to and supported (e.g., Open Health NLP Consortium [16]). ...