MetDisease

MetDisease annotates metabolic networks in Cytoscape with disease associations by mapping MeSH disease terms to PubChem compounds using literature-derived data to link metabolites, genes, and pathways.

Key Features:

• Integration with MeSH Disease Terms: Maps Medical Subject Headings (MeSH) disease terms to compounds within metabolic networks in Cytoscape.
• Linkage to PubChem Compounds: Maps MeSH disease terms to PubChem Compound entries using literature-derived associations.
• Exploration of Disease Relationships: Enables exploration of relationships between diseases and metabolites within the context of metabolic networks.
• Genome-based reconstruction support: Links metabolites to disease information through annotated genes and literature references applicable to genome-based metabolic reconstructions and pathway databases.
• Coverage beyond canonical pathways: Annotates experimentally detected metabolites that lack canonical pathway mappings by leveraging literature-based MeSH–PubChem associations.

Scientific Applications:

• Metabolomics–genomics integration: Connects experimental metabolomics data to genomic information using genome-based metabolic reconstructions.
• Biomarker identification: Supports identification of candidate metabolic biomarkers implicated in specific diseases via literature-linked metabolite annotations.
• Disease mechanism investigation: Aids molecular-level investigation of disease mechanisms by highlighting metabolite–gene–disease links in metabolic networks.
• Therapeutic target exploration: Facilitates exploration of potential therapeutic targets by revealing disease-associated metabolites and their network contexts.

Methodology:

Maps MeSH disease terms to PubChem compounds using literature-derived associations and annotates compounds within Cytoscape metabolic networks, with applicability to genome-based metabolic reconstructions.