How Granularity Issues Concern Biomedical Ontology Integration
نویسندگان
چکیده
The application of upper ontologies has been repeatedly advocated for supporting interoperability between domain ontologies in order to facilitate shared data use both within and across disciplines. We have developed BioTop as a top-domain ontology to integrate more specialized ontologies in the biomolecular and biomedical domain. In this paper, we report on concrete integration problems of this ontology with the domain-independent Basic Formal Ontology (BFO) concerning the issue of fiat and aggregated objects in the context of different granularity levels. We conclude that the third BFO level must be ignored in order not to obviate cross-granularity integration.
منابع مشابه
A Reference Model for Biomedical Ontology Evaluation: The Perspective of Granularity
There have been many attempts using ontologies to develop systems that integrate data from the domains of medicine and biology, across levels of gravity. Such integration systems have not gained wide adoption and reuse. This is largely due to a lack of an approach with metrics as frame of reference to enable users evaluate these systems for their representation of biomedical structure, accross ...
متن کاملTowards a Reusable Evaluation Framework for Ontology based biomedical Systems Integration
Evaluation of ontology based integrated biomedical systems is important for them to find wide adoption and reuse in distributed computing environments that facilitate information exchange and knowledge generation in biomedicine. The review reveals many approaches to information systems and ontology based evaluation with standards, none of which are generic enough for use in all situations. It a...
متن کاملA Flexible Approach for User Evaluation of Biomedical Ontologies
There has been an emergence of various ontologies describing data from either the clinical or biological domains. Associated with this are attempts to develop systems that integrate clinical and biological ontologies using various strategies to overcome issues of scope, differing levels of granularity and conflicting user needs. However, lack of knowledge about user needs for such integration s...
متن کاملA Flexible Biomedical Ontology Selection Tool
The wide adoption and reuse of existing biomedical ontologies available in various libraries is limited by the lack of suitable tools with metrics for their evaluation by both naïve users and expert ontologists. Existing evaluation tools perform technical evaluation of the structure of an ontology as presented by its design and knowledge representation. These find little use in evaluating the p...
متن کاملOntology-assisted database integration to support natural language processing and biomedical data-mining
Successful biomedical data mining and information extraction require a complete picture of biological phenomena such as genes, biological processes, and diseases; as these exist on different levels of granularity. To realize this goal, several freely available heterogeneous databases as well as proprietary structured datasets have to be integrated into a single global customizable scheme. We wi...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- Studies in health technology and informatics
دوره 136 شماره
صفحات -
تاریخ انتشار 2008