Multi-omics Analysis Package
LC/MS, GC/MS Data Analysis Software

The Multi-omics Analysis Package is metabolic engineering software that can automatically generate metabolic maps and perform a variety of data analysis based on the vast amounts of mass spectrometry data generated in fields such as metabolomics, proteomics, and flux analysis. In conjunction with the various method packages and databases offered by Shimadzu for metabolomic analysis, the Multi-omics Analysis Package can help increase the efficiency of metabolomic data analysis work. The intuitive visualization of data provides powerful support for drug discovery, functionally-enhanced foods, bioengineering, and other life sciences research applications.
Visualize Changes in Compound Quantities on a Metabolic Map Using Simple Operations
The software dramatically decreases the amount of work required for graphing measurement data or displaying it on a metabolic map.
Identify Significant Compounds Using Simple Operations
It makes it easy to use volcano plots for comparing two groups, principal component analysis (PCA) for comparing multiple groups, hierarchical clustering analysis (HCA), and box plots. Linked PCA, HCA, and box plot results can be displayed in the same window to conveniently identify significant compounds. The metabolic map can be enlarged to confirm where identified compounds are located on the map and to support confirming and interpreting the data.
Includes Visualization Template Files Compatible with a Variety of Method Packages
The templates are designed to work in combination with various Shimadzu method packages. These packages contain sample pretreatment methods and analytical conditions for use as “ready-to-use methods,” which ensure the entire process, from mass spectrometry analysis to data analysis, can be performed with ease. In particular, these visualization templates (metabolic maps) are compatible with method packages for primary metabolites, cell culture profiling, lipid mediators, and bile acid. The templates can be used as-is or customized using simple operations.
The Process Flow of Multi-omics Analysis Package

Tools for Data Analysis
The Multi-omics Analysis Package is based on software tools (called gadgets) that have been released on the GARUDA platform - an open research platform developed by the GARUDA Alliance and led by The Systems Biology Institute, Japan (SBI).
Data Analysis Tools Used in the Multi-omics Analysis Package

Volcano Plot
A tool that combines a t-test (statistically significant difference) and a fold-change (Example: Difference in mean value such as 2 times or 1/2) to visualize the differences between the two groups. The Volcano Plot gadget developed by Shimadzu is included in the package.

EasyStats
This tool is for visualizing principal component analysis (PCA) or hierarchical cluster analysis (HCA) results or box plots (including t-test) of measurement data. It can display metabolite data analysis results in a single window to enable comprehensive determination of characteristic changes.

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)

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.
LC/MS/MS Method Packages Supported by Multi-omics Analysis Package
* The Multi-omics Analysis Package is included with the LC/MS/MS Method Package for Primary Metabolite, Cell Culture Profiling, and Metabolites Method Package Suite.
News / Events
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Handbook of Analysis Procedures for EPA method 533, EPA method 537.1 are now available.
The validity of the analysis performed by each laboratory needs to be confirmed by Quality Control (QC). This article section shows the general analytical procedure for fulfilling QC requirements. Note that the procedure could be modified depending on the situation in the lab and analysts.
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Shimadzu has released the CLAM-2040, Fully Automated Sample Preparation Module for LCMS
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Interpretation of LC Chromatograms Facilitated by Mass Detection and the Mass-it™ Function
The LCMS-2050 mass spectrometer includes Mass-it functionality that can overlay compound mass (m/z) information, obtained with the mass spectrometer, onto UV chromatograms to support supplementing qualitative analysis results obtained using a UV detector.
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Technical Background for the LCMS-2050, a Compact Mass Detector for LC
The LCMS-2050 single quadrupole mass spectrometer is highly compact in size, yet provides both high-speed and high-sensitivity analysis. Shimadzu’s technology has been condensed into an instrument miniaturized to the utmost.
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Shimadzu has updated LC/MS/MS Method Package for Cell Culture Profiling Ver. 3 for LabSolutions LCMS
Version 3 of this method package adds metabolites characteristic of CHO cells, which are frequently used in the manufacture of monoclonal antibodies. Together with existing analytes, this Method Package enables the analysis of 144 compounds in under 20 minutes per sample.