Conceptualization of anatomical spatial entities in the Digital Anatomist Foundational Model.
(65/3910)
Anatomical spatial concepts are indispensable in educational and clinical discourse, yet a system for representing these concepts has not been proposed. Guided by explicit principles and definitions of the Digital Anatomist Foundational Model, we developed an ontology of spaces, surfaces, lines and points that are associated with anatomical structures. Ontologies for Anatomical Structure and Anatomical Spatial Entity were instantiated for the thorax, abdomen, pelvis and perineum. Representing the concepts in--part of--hierarchies as well, provided formative evaluation of the classification. We invite empirical evaluation of the Foundational Model through its use for educational and clinical applications. (+info)
Segmenting healthcare terminology users: a strategic approach to large scale evolutionary development.
(66/3910)
Healthcare terminologies have become larger and more complex, aiming to support a diverse range of functions across the whole spectrum of healthcare activity. Prioritization of development, implementation and evaluation can be achieved by regarding the "terminology" as an integrated system of content-based and functional components. Matching these components to target segments within the healthcare community, supports a strategic approach to evolutionary development and provides essential product differentiation to enable terminology providers and systems suppliers to focus on end-user requirements. (+info)
Model-based semantic dictionaries for medical language understanding.
(67/3910)
Semantic dictionaries are emerging as a major cornerstone towards achieving sound natural language understanding. Indeed, they constitute the main bridge between words and conceptual entities that reflect their meanings. Nowadays, more and more wide-coverage lexical dictionaries are electronically available in the public domain. However, associating a semantic content with lexical entries is not a straightforward task as it is subordinate to the existence of a fine-grained concept model of the treated domain. This paper presents the benefits and pitfalls in building and maintaining multilingual dictionaries, the semantics of which is directly established on an existing concept model. Concrete cases, handled through the GALEN-IN-USE project, illustrate the use of such semantic dictionaries for the analysis and generation of multilingual surgical procedures. (+info)
Mining molecular binding terminology from biomedical text.
(68/3910)
Automatic access to information regarding macromolecular binding relationships would provide a valuable resource to the biomedical community. We report on a pilot project to mine such information from the molecular biology literature. The program being developed takes advantage of natural language processing techniques and is supported by two repositories of biomolecular knowledge. A formative evaluation has been conducted on a subset of MEDLINE abstracts. (+info)
Use of the Extensible Stylesheet Language (XSL) for medical data transformation.
(69/3910)
Recently, the Extensible Markup Language (XML) has received growing attention as a simple but flexible mechanism to represent medical data. As XML-based markups become more common there will be an increasing need to transform data stored in one XML markup into another markup. The Extensible Stylesheet Language (XSL) is a stylesheet language for XML. Development of a new mammography reporting system created a need to convert XML output from the MEDLee natural language processing system into a format suitable for cross-patient reporting. This paper examines the capability of XSL as a rule specification language that supports the medical XML data transformation. A set of nine relevant transformations was identified: Filtering, Substitution, Specification, Aggregation, Merging, Splitting, Transposition, Push-down and Pull-up. XSL-based methods for implementing these transformations are presented. The strengths and limitations of XSL are discussed in the context of XML medical data transformation. (+info)
A reference terminology for drugs.
(70/3910)
GALEN technology for re-usable terminologies using formal classification is being applied to the creation and maintenance of a reference terminology for drugs. GALEN's techniques are being used to address specific deficiencies of existing drug classifications that make it difficult to create and maintain guidelines to support prescribing in the care of patients with chronic diseases. The reference terminology is in two parts; firstly, a re-usable and automatically-classified 'ontology' is built with GALEN technology; this describes generic drugs, their composition in terms of chemicals and chemical classes, their actions, indications and interactions. Secondly, a 'dictionary' of prescribable proprietary products is integrated with this ontology. The result is a drug resource designed to support both the traditional uses of a drug knowledge base (e.g. prescribing and messaging), and the specialized demands of guideline authoring and execution. (+info)
Analysis of biomedical text for chemical names: a comparison of three methods.
(71/3910)
At the National Library of Medicine (NLM), a variety of biomedical vocabularies are found in data pertinent to its mission. In addition to standard medical terminology, there are specialized vocabularies including that of chemical nomenclature. Normal language tools including the lexically based ones used by the Unified Medical Language System (UMLS) to manipulate and normalize text do not work well on chemical nomenclature. In order to improve NLM's capabilities in chemical text processing, two approaches to the problem of recognizing chemical nomenclature were explored. The first approach was a lexical one and consisted of analyzing text for the presence of a fixed set of chemical segments. The approach was extended with general chemical patterns and also with terms from NLM's indexing vocabulary, MeSH, and the NLM SPECIALIST lexicon. The second approach applied Bayesian classification to n-grams of text via two different methods. The single lexical method and two statistical methods were tested against data from the 1999 UMLS Metathesaurus. One of the statistical methods had an overall classification accuracy of 97%. (+info)
Anatomical information in radiation treatment planning.
(72/3910)
We report on experience and insights gained from prototyping, for clinical radiation oncologists, a new access tool for the University of Washington Digital Anatomist information resources. This access tool is designed to integrate with a radiation therapy planning (RTP) system in use in a clinical setting. We hypothesize that the needs of practitioners in a clinical setting are different from the needs of students, the original targeted users of the Digital Anatomist system, but that a common knowledge resource can serve both. Our prototype was designed to help define those differences and study the feasibility of a full anatomic reference system that will support both clinical radiation therapy and all the existing educational applications. (+info)