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Osaka University Shimadzu Analytical Innovation Research Laboratory has developed software to analyze and visualize multi-omics data jointly with Osaka University and the Systems Biology Institute (SBI).


The software workflow is based on software tools (called gadgets) that have been released on the GARUDA* platform - an open research platform, developed by the GARUDA Alliance led by SBI. The outputs of the collaborative work have been publicized and released as “Multi-omics Analysis Package”.

* S. Ghosh, Y.Matsuoka, Y. Asai, K.Hsin, H. Kitano, “Software for systems biology: from tools to integrated platforms”, Nature Reviews Genetics, 3 November 2011.

The Multi-omics Analysis Package provides the ability to automatically generate metabolic maps and perform a variety of data analysis for the vast data generated in fields like metabolomics, proteomics and flux analysis. It offers a powerful platform to support drug discovery, bioengineering and other life science research applications.

Main Tools for Data Analysis

Volcano Plot
A tool that combines a t-test (statistically significant difference) and a fold analysis (Example: Difference in mean value such as 2 times or 1/2) to visualize the differences between the 2 groups. The Volcano Plot gadget developed by Shimadzu is included in the package.
VANTED
Tool maintained at University of Konstanz, Germany, for visualization and analysis of networks across different data sets. (GARUDA support was developed at Monash University)
iPath
Data analysis tool developed by the European Molecular Biology Laboratory that can be used for visualization of diverse metabolic pathways or data mapping and customization.
Cytoscape
Bioinformatics tool developed by the Cytoscape Consortium, used to visualize metabolic pathways, to integrate gene expression profiles with related data, and so on. It is especially useful for analyzing networks and visualizing correlations.
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