Skip Navigation



Bioinformatics Advance Access published online on February 2, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti296
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
21/9/2138    most recent
bti296v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Divoli, A.
Right arrow Articles by Attwood, T. K.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Divoli, A.
Right arrow Articles by Attwood, T. K.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Bioinformatics © Oxford University Press 2005; all rights reserved.
Received September 22, 2004
Revised January 25, 2005
Accepted January 26, 2005

Applications note

BioIE: extracting informative sentences from the biomedical literature

Anna Divoli 1* and Teresa K. Attwood 1

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

* To whom correspondence should be addressed.
Anna Divoli, E-mail: divoli{at}bioinf.man.ac.uk


  Abstract

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/.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
K. Fundel, R. Kuffner, and R. Zimmer
RelEx--Relation extraction using dependency parse trees
Bioinformatics, February 1, 2007; 23(3): 365 - 371.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
D. Rebholz-Schuhmann, H. Kirsch, M. Arregui, S. Gaudan, M. Riethoven, and P. Stoehr
EBIMed--text crunching to gather facts for proteins from Medline
Bioinformatics, January 15, 2007; 23(2): e237 - e244.
[Abstract] [Full Text] [PDF]

Home page
 J. Am. Med. Inform. Assoc.Home page
D. Dinakarpandian, Y. Lee, K. Vishwanath, and R. Lingambhotla
MachineProse: an Ontological Framework for Scientific Assertions
J. Am. Med. Inform. Assoc., March 1, 2006; 13(2): 220 - 232.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
A. L. Mitchell, A. Divoli, J.-H. Kim, M. Hilario, I. Selimas, and T. K. Attwood
METIS: multiple extraction techniques for informative sentences
Bioinformatics, November 15, 2005; 21(22): 4196 - 4197.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.