BioIE: extracting informative sentences from the biomedical literature

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 s...

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Bibliographic Details
Published in:Bioinformatics 2005-05, Vol.21 (9), p.2138-2139
Main Authors: Divoli, Anna, Attwood, Teresa K.
Format: Article
Language:English
Subjects:
Biological and medical sciences
Database Management Systems
Documentation - methods
Fundamental and applied biological sciences. Psychology
General aspects
Information Storage and Retrieval - methods
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
MEDLINE
Natural Language Processing
Periodicals as Topic
Proteins - chemistry
Proteins - classification
Proteins - metabolism
Proteomics - methods
Software
User-Computer Interface
Vocabulary, Controlled
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Description
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@bioinf.man.ac.uk
ISSN:1367-4803
1460-2059
1367-4811
DOI:10.1093/bioinformatics/bti296