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Volume 5


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In Silico Biology 5, 0039 (2005); ©2005, Bioinformation Systems e.V.  



KEGG-based pathway visualization tool for complex omics data

Kazuharu Arakawa1, Nobuaki Kono1, Yohei Yamada1, Hirotada Mori1, 2 and Masaru Tomita1*

1 Institute for Advanced Biosciences, Keio University, Endo 5322, Fujisawa, Kanagawa 252-8520, Japan
2 Research and Education Center of Genetic Information, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0101, Japan

* Corresponding author; E-mail: mt@sfc.keio.ac.jp


Edited by E. Wingender; received July 09, 2005; revised and accepted July 15, 2005; published July 18, 2005


Abstract

Pathway-level visualization of omics data provides an essential means for systems biology, to capture the systematic properties of the inner activities of cells. Here we describe a web-based resource consisting of a web-application for the visualization of complex omics data onto KEGG pathways to overview all entities in the context of cellular pathways, and databases created with the software to visualize a series of microarray data. The web-application accepts transcriptome, proteome, metabolome, or the combination of these data as input, and because of this scalability it is advantageous for the visualization of cell simulation results. The web server can be accessed at http://www.g-language.org/data/marray/.


Keywords: KEGG, pathway visualization, systems biology, microarray, transcriptome, metabolome