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Bioinformatics Advance Access published online on June 28, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm330
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

POODLE-S: Web application for predicting protein disorder by using physicochemical features and reduced amino acid set of a position specific scoring matrix

Kana Shimizu a,*, Shuichi Hirose b and Tamotsu Noguchi a

aComputational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST), 2-42 Aomi, Koto-ku, Tokyo 135-0064, Japan, bPharmaDesign, Inc., 2-19-8 Hatchobori, Chuo-ku, Tokyo 104-0032, Japan

*To whom correspondence should be addressed. Dr. Kana Shimizu, E-mail: shimizu-kana{at}aist.go.jp


  Abstract

Sumarry: Protein disorder is characterised by a lack of a stable threedimensional structure, and is considered to be involved in a number of important protein functions such as regulatory and signalling events. We developed a web application, the POODLE-S, which predicts the disordered region from amino acid sequences by using physicochemical features and reduced amino acid set of a position specific scoring matrix.

Availability: POODLE-S is available from http://mbs.cbrc.jp/poodle/poodle-s.html and can be used by both academic and commercial users.

Associate Editor: Prof. Anna Tramontano

Received on April 4, 2007; revised on May 2, 2007; accepted on June 16, 2007

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