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Bioinformatics Advance Access published online on July 10, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm351
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

EcoProDB: the Escherichia coli protein database

Hongseok Yun 1,2, Jeong Wook Lee 1, Joonwoo Jeong 2, Jaesung Chung 3, Jong Myoung Park 1,2, Han Na Myoung 1,2 and Sang Yup Lee 1,2,3,*

1Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 program), Center for Systems and Synthetic Biotechnology, Institute for the BioCentury, BioProcess Engineering Research Center, 2Bioinformatics Research Center, 3Department of BioSystems, Korea Advanced Institute of Science and Technology, 335 Gwahangno, Yuseong-gu, Daejeon 305-701, Korea

*To whom correspondence should be addressed. Sang Yup Lee, E-mail: leesy{at}kaist.ac.k


  Abstract

Summary:EcoProDB is a web-based database for comparative proteomics of Escherichia coli. The database contains information on E. coli proteins identified on 2-D gels along with other resources collected from various databases and published literature, with a special feature of showing the expression levels of E. coli proteins under different genetic and environmental conditions. It also provides comparative information of subcelluar localization, theoretical 2-D map, experimental 2-D map, and integrated protein information via an interactive web interface and application such as the Map Browser. Users can also upload their own 2-D gels, extract core information associated with the proteins and 2-D gel results from different experiments, and consequently generate new knowledge and hypothesis for further studies.

Availability: EcoProDB database system is accessible at http://eecoli.kaist.ac.kr

Contact: leesy{at}kaist.ac.k

Associate Editor: Prof. Alfonso Valencia

Received on March 31, 2007; revised on June 13, 2007; accepted on July 1, 2007

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