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Nucleic Acids Research Advance Access originally published online on January 12, 2009
Nucleic Acids Research 2009 37(4):1297-1307; doi:10.1093/nar/gkn1008
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Nucleic Acids Research, 2009, Vol. 37, No. 4 1297-1307
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Computational Biology

Genome-wide analysis to predict protein sequence variations that change phosphorylation sites or their corresponding kinases

Gil-Mi Ryu1,2, Pamela Song3, Kyu-Won Kim2, Kyung-Soo Oh1, Keun-Joon Park1 and Jong Hun Kim3,*

1Center for Genome Science, 5 Nokbun-Dong, Eunpyung-Ku, Seoul, 122-701, 2Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University, 599 Gwanak-ro Gwanak-Ku, Seoul, 151-742 and 3Department of neurology, Samsung Medical Center, 50 Irwon-dong, kangnam-Ku, Seoul, 135-710 Korea

*To whom correspondence should be addressed. Tel: +82 2 3410 1426; Fax: +82 2 3410 1469; Email: jh7521{at}naver.com

Received August 22, 2008. Revised December 1, 2008. Accepted December 2, 2008.

We define phosphovariants as genetic variations that change phosphorylation sites or their interacting kinases. Considering the essential role of phosphorylation in protein functions, it is highly likely that phosphovariants change protein functions. Therefore, a comparison of phosphovariants between individuals or between species can give clues about phenotypic differences. We categorized phosphovariants into three subtypes and developed a system that predicts them. Our method can be used to screen important polymorphisms and help to identify the mechanisms of genetic diseases.


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