Web-based multi-omics integration using the Analyst software suite

Area of Science:

• Bioinformatics
• Computational Biology
• Systems Biology

Background:

• Multi-omics studies are increasing, requiring integrated analysis workflows and accessible software tools.
• Current multi-omics integration methods often lack user-friendliness and comprehensive functionality.
• Efficient analysis and interpretation of complex multi-omics data are crucial for biological discovery.

Purpose of the Study:

• To present a comprehensive protocol for multi-omics data analysis and integration.
• To demonstrate the utility of the Analyst software suite for various omics data types.
• To enable researchers to perform knowledge-driven and data-driven integration using biological networks and dimensionality reduction.

Main Methods:

• Single-omics data analysis using ExpressAnalyst (transcriptomics/proteomics) and MetaboAnalyst (lipidomics).
• Knowledge-driven integration of significant features using OmicsNet and biological networks.
• Data-driven integration via joint dimensionality reduction using OmicsAnalyst.

Main Results:

• The protocol successfully integrates transcriptomics, proteomics, and lipidomics data from human pancreatic islet and plasma samples.
• The Analyst software suite facilitates both knowledge-driven and data-driven multi-omics integration.
• The complete workflow can be executed efficiently within approximately 2 hours.

Conclusions:

• The Analyst software suite provides a user-friendly web interface for diverse multi-omics data analysis tasks.
• This protocol offers a streamlined approach to multi-omics integration, enhancing biological data interpretation.
• The presented workflow empowers researchers to conduct advanced multi-omics analyses with ease.