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BioProp : a Biomedical Proposition Bank

Bioinformatics tools for automatic processing of biomedical literature are invaluable for both the design and interpretation of large-scale experiments. Many information extraction (IE) systems that incorporate natural language processing (NLP) techniques have thus been developed for use in the biomedical field. A key IE task in this field is the extraction of biomedical relations, such as protein-protein and gene-disease interactions. However, most biomedical relation extraction systems usually ignore adverbial and prepositional phrases and words identifying location, manner, timing, and condition, which are essential for describing biomedical relations. Semantic role labeling (SRL) is a natural language processing technique that identifies the semantic roles of these words or phrases in sentences and expresses them as predicate-argument structures.
BioProp Version 1.0 consists of proposition bank-style annotations for approximately 500 English biomedical journal abstracts. The source abstracts, annotated in accordance with Penn Treebank II guidelines, are contained in the GENIA Treebank (GTB). The GTB was developed at the Tsujii Laboratory at the University of Tokyo.
Project home page: http://bioservices.cse.yzu.edu.tw/BioProp/
webiconDownload link: http://www.ldc.upenn.edu/Catalog/CatalogEntry.jsp?catalogId=LDC2009T04

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Wen-Lian Hsu
Professor, IEEE ellowbr> Research Fellow
Institute of Information Science ,
Academia Sinica, Taipei,
Taiwan, R. O. C.
Phone:
886-2-27883799 ext.1804
Fax:
886-2-27824814
E-mail: hsu@iis.sinica.edu.tw

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Ting-Yi Sung
Research Fellow
Institute of Information Science ,
Academia Sinica, Taipei,
Taiwan, R. O. C.
Phone:
886-2-27883799 ext.1711
Fax:
886-2-27824814
E-mail:
 tsungiis.sinica.edu.tw

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Intelligent Agent Systems Lab., Institute of Information Science,, Academia Sinica.
128 Academia Road, Sec.2, Nankang, Taipei, Taiwan, ROC
Tel: +886-2-2788-3799, Fax: 886-2-2782-4814, 886-2-2651-8660/div>