AllEnricher

AllEnricher performs gene set function enrichment analysis for model and non-model species by integrating multiple public resources to interpret gene lists such as differentially expressed genes, co-expressed gene sets, or genes with differential epigenomic modifications.

Key Features:

• Multi-Species Compatibility: Supports functional enrichment analysis for both model organisms and non-model species.
• User-Defined Libraries: Uses user-defined libraries that can be defined and updated for tailored analyses.
• Supported Input Types: Accepts gene lists derived from differential gene expression analysis, co-expression analysis, and genes with differential epigenomic modifications.
• Comprehensive Functional Interpretation: Integrates annotations from Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Reactome, Disease Ontology (DO), and DisGeNET for multi-dimensional functional classification.
• Up-to-Date Data Integration: Incorporates current data from multiple public databases to inform enrichment results.

Scientific Applications:

• Functional Genomics: Interprets large gene lists to identify enriched biological functions and annotations.
• Pathway and Disease Association Analysis: Identifies enriched pathways and disease-associated annotations using GO, KEGG, Reactome, DO, and DisGeNET.
• Cross-Species Comparative Studies: Enables enrichment analyses across diverse species, supporting comparative and non-model organism research.

Methodology:

Calculates gene set function enrichment using user-defined libraries that are regularly updated and integrates annotations from GO, KEGG, Reactome, DO, and DisGeNET to provide multi-dimensional functional classifications.