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Bioinformatics Advance Access originally published online on February 2, 2005
Bioinformatics 2005 21(9):2138-2139; doi:10.1093/bioinformatics/bti296
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

BioIE: extracting informative sentences from the biomedical literature

Anna Divoli * and Teresa K. Attwood

Faculty of Life Sciences and School of Computer Science, University of Manchester Manchester M13 9PT, UK

*To whom correspondence should be addressed.

Summary: BioIE is a rule-based system that extracts informative sentences relating to protein families, their structures, functions and diseases from the biomedical literaturE. Based on manual definition of templates and rules, it aims at precise sentence extraction rather than wide recall. After uploading source text or retrieving abstracts from MEDLINE, users can extract sentences based on predefined or user-defined template categories. BioIE also provides a brief insight into the syntactic and semantic context of the source-text by looking at word, N-gram and MeSH-term distributions. Important Applications of BioIE are in, for example, annotation of microarray data and of protein databases.

Availability: http://umber.sbs.man.ac.uk/dbbrowser/bioie/

Contact: divoli{at}bioinf.man.ac.uk


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