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Online Maps of Metabolic and Signaling Pathways

Graphical display of pathways.


CellCircuits is a database of molecular network models, designed to bridge the gap between databases of individual pairwise molecular interactions and databases of validated pathways.

ConsensusPathDB"  info

ConsensusPathDB-human integrates interaction networks in Homo sapiens including binary and complex protein-protein, genetic, metabolic, signaling, gene regulatory and drug-target interactions, as well as biochemical pathways.

Database for Preterm Birth"  info

The Database for Preterm Birth (dbPTB) is a web-based aggregation tool to organize the genes, genetic variations and pathways involved in preterm birth, dbPTB. We used semantic data mining to extract all published articles related to preterm birth. All articles were reviewed by a team of curators. Genes identified from public databases and archives of expression arrays were aggregated with genes curated from the literature.


Gene trapping is a high-throughput approach that is used to introduce insertional mutations across the genome in mouse embryonic stem (ES) cells. In addition to generating standard loss-of-function alleles, newer gene trap vectors offer a variety of post-insertional modification strategies for the generation of other experimental alleles. The International Gene Trap Consortium (IGTC) represents all publicly available gene trap cell lines, which are available on a non-collaborative basis for nominal handling fees. Researchers can search and browse the IGTC database for cell lines of interest using accession numbers or IDs, keywords, sequence data, tissue expression profiles and biological pathways.

Multiorganism Database of Metabolic Pathways and Enzymes"  info

MetaCyc is a database of nonredundant, experimentally elucidated metabolic pathways from more than 300 different organisms.

The NCBI BioSystems Database

The NCBI BioSystems database, found at, centralizes and cross-links existing biological systems databases, increasing their utility and target audience by integrating their pathways and systems into NCBI resources. This integration allows users of NCBI's Entrez databases to quickly categorize proteins, genes and small molecules by metabolic pathway, disease state or other BioSystem type, without requiring time-consuming inference of biological relationships from the literature or multiple experimental datasets.

PathCards - Pathway Unification Database

Pathway database, established by the Weizmann Institute.

Cell Signaling Pathways

Cell signaling pathways can be conveniently explored using PathFinder, an interactive, online graphical representation of cell signaling pathways.

Pathway Commons"  info

Pathway Commons is a network biology resource and acts as a convenient point of access to biological pathway information collected from public pathway databases, which you can search, visualize and download.

Pathway Interaction Database

Biomolecular interactions and cellular processes assembled into authoritative human signaling pathways.

Reactome - A Knowledgebase of Biological Processes

The Reactome project is a collaboration among Cold Spring Harbor Laboratory, The European Bioinformatics Institute, and The Gene Ontology Consortium to develop a resource of core pathways and reactions in human biology.

Reactive Oxygen Species and Cell Signaling Pathway

ROSPath is a database for proteins involved in ROS-mediated signaling pathways.

Signaling Pathway Integrated Knowledge Engine

The rapid accumulation of knowledge on biological signaling pathways and their regulatory mechanisms has highlighted the need for specific repositories that can store, organize and allow retrieval of pathway information in a way that will be useful for the research community. SPIKE is a database for achieving this goal, containing highly curated interactions for particular human pathways, along with literature-referenced information on the nature of each interaction.

Signal Transductions Classification Database"  info

The Signal Transduction Classification Database (STCDB) is a database about to the classification of signal transduction.

Search Tool for the Retrieval of Interacting Genes / Proteins (STRING)

STRING is a database of known and predicted protein-protein interactions.