FunRich

FunRich performs functional enrichment and interaction network analysis of genes, proteins, and other biological datasets to identify enriched biological functions, pathways, and molecular interactions.

Key Features:

• Extensive database integration: Integrates over 1.5 million annotations from diverse genomic and proteomic resources, including a default human-specific database and UniProt entries spanning 20 taxonomies.
• Customizable databases: Allows creation of custom background databases to apply enrichment analyses across genomics, proteomics, lipidomics, and metabolomics datasets and across different organisms.
• Functional enrichment analysis: Performs enrichment analysis on gene- and protein-level datasets to identify significantly overrepresented biological functions and pathways.
• Interaction network analysis: Analyzes molecular interaction networks to explore relationships among genes, proteins, and biological processes.
• Graphical outputs: Produces graphical representations including Venn diagrams, pie charts, bar and column charts, heatmaps, and doughnut charts for visualization of analysis results.

Scientific Applications:

• Functional genomics: Identifies enriched biological functions and pathways from large-scale genomic datasets.
• Proteomics: Interprets protein-level datasets to reveal functional categories and interactions relevant to experimental conditions.
• Disease mechanism and biomarker discovery: Supports detection of pathways and molecular interactions implicated in disease and candidate biomarker identification.
• Integrative omics and network analysis: Facilitates cross-omics interpretation and exploration of complex biological networks using combined dataset types.

Methodology:

Integrates heterogeneous genomic and proteomic resources into a cohesive background database (over 1.5 million annotations, including UniProt across 20 taxonomies) and performs functional enrichment by comparing user-provided datasets against these background annotations, with support for custom database creation.