Learn to use the Classic Reactome resource, which is an older version of the current Reactome knowledgebase of biological processes. Reactome provides high quality, deeply curated assemblies of information about biological pathways, networks, and their components. Classic Reactome is no longer being updated and therefore its pathway information may be dated, but researchers are able to use favorite tools such as the starry night pathway map and the Skypainter tool for overlaying their gene lists to pathway maps. Knowing how to use classic Reactome features also benefits investigators when confronted with older installations of Reactome associated with other resources, which may not always be in sync with the latest version of the Reactome site.

You will learn:

  • how to navigate through the biochemical pathway information in Classic Reactome
  • how to find diagrams and details about biological pathways
  • ways to link pathway specific information to the participating molecules


This tutorial is a part of the tutorial group Interaction resources. You might find the other tutorials in the group interesting:

Pathway Interaction Database: A resource of pathway and network data and displays

MINT: Molecular Interaction Database

Cytoscape: An open-source software platform used for visualization and analysis of molecular interaction and network data

BiologicalNetworks: Analyze and visualize molecular interaction networks

BioSystems: Database of Biological Systems

Reactome: Knowledgebase of biological processes

GeneMANIA: GeneMANIA: Fast Gene Function Predictions

GenMAPP: A freely available open source software application for visualizing microarray data in the context of biological pathways.

VisANT: A web-based or downloadable software platform used for visualization and analysis of networks and interaction pathways

InterPro: A comprehensive protein signature resource

IntAct protein interaction database: IntAct is an open source database and analysis resource for protein interaction data

KEGG: KEGG, The Kyoto Encyclopedia of Genes and Genomes


Pathways and Interactions : Tools that are involved with protein interactions and pathway features. Some tools are primarily repositories and some offer analysis options.


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