## Pathways / Hypergeometric test for ConsensusPathDB

### Description

Searches gene lists for over-represented pathways in the ConsensusPathDB (CPDB). This service is provided by the Max Planck Institute for Molecular Genetics.

### Parameters

- P value threshold (0-1) [0.05]
- Input type (gene, uniprot) [gene]

### Details

This tool takes a filtered data set (e.g. a list of differentially expressed genes) and goes through all the pathways in CPDB. CPDB is a database that integrates pathway and other functional interaction resources like Reactome, HumanCyc, BioCarta, Pathway Interaction Database and others. For every pathway, a hypergeometric test is calculated, and the pathways that acquire a p-value smaller than the user-specified threshold are reported. This tool works with any data containing human gene symbols or UniProt identifiers. The background size used in the p-value calculation is the number of CPDB entities annotated with the same identifers (UniProt or human gene symbols).

### Output

Output is a list of significant pathways as text file (allows sorting by columns) and as an html file (with hyperlinks to the corresponding entries in the CPDB member databases).

### References

More information can be found at the CPDB website and in the following article:

Kamburov et al: ConsensusPathDB - a database for integrating human functional interaction networks. Nuc Acids Res 37:D623-D628 (2008)