Pathway databases

Pathway databases contain gene information of pathways, or other biologically relevant groupings of genes. They can be used in a Gene set enrichment analysis to provide more relevant understanding of the biology in the results of high-throughput experiments.

Databases

• Gene ontology
• MSigDB
• KEGG
• MetaCyc
• Reactome
• RegulonDB
• STKE
• BioCarta
• PantherDB

Tools to visualize pathways

• Pathview - visualising pathways in Bioconductor
• GenMapp GO-Elite - a GUI to compute GO enrichment and display results on pathways