Table 2 List of highly cited pathway databases for proteomic applications

Reactome KnowledgeBase

Signal Transduction Pathway

http://www.reactome.org

BioCarta Pathway Diagrams

Signal Transduction Pathway

http://www.biocarta.com/genes/index.asp

Pathway Commons

Signal Transduction Pathway

http://www.pathwaycommons.org/pc/

Protein ANalysis THrough Evolutionary Relationships

Signal Transduction Pathway

http://www.pantherdb.org

Protein Lounge

Signal Transduction Pathway

http://www.proteinlounge.com

WikiPathways

Signal Transduction Pathway

http://wikipathways.org/

Transcription Factor encyclopedia

Regulatory Pathways

http://www.cisreg.ca/cgi-bin/tfe/home.pl

Transcription Regulatory Regions Database

Regulatory Pathways

http://wwwmgs.bionet.nsc.ru/mgs/gnw/trrd/

A Public Database of Transcription Factor and Regulatory Sequence Annotation

Regulatory Pathways

http://www.pazar.info/

Homo Sapiens Comprehensive Model Collection (HOCOMOCO)

Regulatory Pathways

http://autosome.ru/HOCOMOCO/index.php

Transcription Factor Database

Regulatory Pathways

http://www.gene-regulation.com/index2.html

Human Protein Reference Database

Protein-Protein Interactions

http://www.hprd.org/

Human Annotated and Predicted Protein Interaction Database

Protein-Protein Interactions

http://bio.informatics.iupui.edu/HAPPI/

Biomolecular Interaction Network Database

Protein-Protein Interactions

http://bond.unleashedinformatics.com/

Molecular Interaction Database

Protein-Protein Interactions

http://mint.bio.uniroma2.it/mint/

Biological General Repository for Interaction Datasets

Protein-Protein Interactions

http://thebiogrid.org/

Search Tool for the Retrieval of Interacting Genes/Proteins

Protein-Protein Interactions

http://string.embl.de/