The development of a schema for the annotation of terms in the BioCaster disease detecting/tracking system
作者： Nigel Collier , Mika Shigematsu , Kiyosu Taniguchi , Roberto Barrero , Ai Kawazoe
DOI:
关键词:
摘要: Amid growing public concern about the spread of infectious diseases such as avian influenza and SARS, there is an increasing need for collecting timely reliable information disease outbreaks from natural language data online news articles. In this paper we introduce BioCaster, a text mining-based system detection tracking currently being developed, discuss development domain ontology schema annotation terms. particular focus on comparison between two approaches, 1) traditional task-oriented approach with simple that does not strictly follow ontological principles, 2) formal which ontologically well-founded but adds extra requirements to schema. We report several critical problems were highlighted by entity experiment, attributable purely design. A second experiment based formally constructed produced improved results despite apparent complexity
参考文章(15)
Ken Kaneiwa, Riichiro Mizoguchi, An Order-Sorted Quantified Modal Logic for Meta-ontology Lecture Notes in Computer Science. pp. 169- 184 ,(2005) , 10.1007/11554554_14
J. F. Sowa, Conceptual Structures: Information Processing in Mind and Machine ,(1983)
Alan R. Aronson, Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program american medical informatics association annual symposium. pp. 17- 21 ,(2001)
Nicola Guarino, Christopher Welty†, A Formal Ontology of Properties knowledge acquisition modeling and management. pp. 97- 112 ,(2000) , 10.1007/3-540-39967-4_8
Donald Davidson, The Individuation of Events Davidson. pp. 216- 234 ,(1969) , 10.1007/978-94-017-1466-2_11
Aldo Gangemi, Nicola Guarino, Claudio Masolo, Alessandro Oltramari, Luc Schneider, Sweetening Ontologies with DOLCE knowledge acquisition, modeling and management. pp. 166- 181 ,(2002) , 10.1007/3-540-45810-7_18
Alexander Yeh, Alexander Morgan, Marc Colosimo, Lynette Hirschman, BioCreAtIvE Task 1A: gene mention finding evaluation BMC Bioinformatics. ,vol. 6, pp. S2- 10 ,(2005) , 10.1186/1471-2105-6-S1-S2
Thomas C. Rindflesch, Lorraine Tanabe, John N. Weinstein, Lawrence Hunter, EDGAR: Extraction of Drugs, Genes And Relations from the Biomedical Literature pacific symposium on biocomputing. pp. 517- 528 ,(1999) , 10.1142/9789814447331_0049
Friedrich Steimann, On the representation of roles in object-oriented and conceptual modelling data and knowledge engineering. ,vol. 35, pp. 83- 106 ,(2000) , 10.1016/S0169-023X(00)00023-9
Jin-Dong Kim, Tomoko Ohta, Yoshimasa Tsuruoka, Yuka Tateisi, Nigel Collier, Introduction to the bio-entity recognition task at JNLPBA JNLPBA '04 Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications. pp. 70- 75 ,(2004) , 10.3115/1567594.1567610