multiGSEA

multiGSEA calculates a combined GSEA-based pathway enrichment score across multiple omics layers by integrating transcriptomic, proteomic, and/or metabolomic data with pathway features from eight databases.

Key Features:

• Multi-omics integration: Supports combined analysis of transcriptomic, proteomic, and metabolomic data layers.
• Pathway database querying: Extracts features from pathways derived from 8 different databases including KEGG, Reactome, and Biocarta.
• GSEA-based enrichment: Relies on the robust GSEA algorithm for single-omics enrichment analysis before combining scores.
• Composite scoring: Combines single-omics GSEA scores into a robust composite multi-omics pathway enrichment measure.
• Cross-species support: Supports 11 different organisms.
• ID mapping: Includes comprehensive mapping of transcripts, proteins, and metabolite identifiers.

Scientific Applications:

• Multi-omics pathway enrichment: Enables combined pathway enrichment analysis across multiple molecular layers to gain biological insights into treatment responses or disease states.
• Cross-platform omics integration: Minimizes restrictions in omics layer selection, pathway database availability, organism selection, and feature identifier mapping for pathway analysis.

Methodology:

multiGSEA queries 8 pathway databases, applies the GSEA algorithm for single-omics enrichment analysis on each layer, and combines the resulting scores into a composite multi-omics pathway enrichment measure.