Terminology-driven literature mining and knowledge acquisition in biomedicine

In this paper we describe Tagged Information Management System (TIMS), an integrated knowledge management system for the domain of molecular biology and biomedicine, in which terminology-driven literature mining, knowledge acquisition (KA), knowledge integration (KI), and XML-based knowledge retriev...

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Bibliographic Details
Published in:International journal of medical informatics (Shannon, Ireland) Ireland), 2002-12, Vol.67 (1), p.33-48
Main Authors: Nenadić, Goran, Mima, Hideki, Spasić, Irena, Ananiadou, Sophia, Tsujii, Jun-ichi
Format: Article
Language:English
Subjects:
Artificial Intelligence
Humans
Information extraction
Information Management
Information Systems
Integrated Advanced Information Management Systems
Knowledge acquisition
Linguistics
Literature mining
MEDLINE
Models, Theoretical
Natural Language Processing
Software
Terminology as Topic
Terminology management
XML annotation
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Summary:In this paper we describe Tagged Information Management System (TIMS), an integrated knowledge management system for the domain of molecular biology and biomedicine, in which terminology-driven literature mining, knowledge acquisition (KA), knowledge integration (KI), and XML-based knowledge retrieval are combined using tag information management and ontology inference. The system integrates automatic terminology acquisition, term variation management, hierarchical term clustering, tag-based information extraction (IE), and ontology-based query expansion. TIMS supports introducing and combining different types of tags (linguistic and domain-specific, manual and automatic). Tag-based interval operations and a query language are introduced in order to facilitate KA and retrieval from XML documents. Through KA examples, we illustrate the way in which literature mining techniques can be utilised for knowledge discovery from documents.
ISSN:1386-5056
1872-8243
DOI:10.1016/S1386-5056(02)00055-2