Beyond Bioinformatics

Title

JUZBOX: A web server for extracting biomedical words from the protein sequence

Authors

Bobby Paul, S. Balaji*, V. Sathyanath, Santhosh J. Eapen

Affiliation

Indian Institute of Spices Research, Calicut, Kerala, India

Email

blast_balaji@rediffmail.com

Article Type

Web Server

Date

Received May 25, 2009; Revised July 31, 2009; Accepted September 11, 2009; Published November 17, 2009

Abstract

The recognition of gene/protein names in literature is one of the pivotal steps in the processing of biological literatures for information extraction or data mining. We have compiled a lexicon of biomedical words (conserved patterns/ potential motifs) which has the combination of only 20 alphabets of amino acids. The remaining 6 letters of the English alphabets (B, J, O, U, X, Z) are treated as invalid amino acid characters (to our context), We have jumbled the 6 letters for the sake of usage and convenience and termed as ‘JUZBOX’ and these characters were filtered in the biomedical lexicon. Undoubtedly, the generation of biomedical words from protein sequence using JUZBOX have applications specific for functional annotation.

Keywords

JUZBOX; biomedical words; lexicon

JUZBOX is available freely at http://www.spices.res.in/juzbox

Citation

Paul et al., Bioinformation 4(5):  179-181 (2009)

Edited by

P. Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics

Copyright

Publisher

Copyright Transfer Agreement

The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.

License

This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.