Reactome can also be used for data mining and large–scale analysis of gene, protein and metabolite lists. Some of these tools are covered in more detail in the User Guide.
Pathway Browser is a tool for visualizing and interacting with Reactome biological pathways.
Analyze Data tool merges pathway identifier mapping, over-representation, and expression analysis tools into a single tabbed data analysis portal with integrated visualization and summary features, which can accept a gene, protein or small molecule list, or an expression dataset.
Species Comparison allows you to compare pathways between human and any of the other species inferred from Reactome by orthology
Reactome FI Network Cytoscape plugin is designed to find network patterns related to cancer and other types of diseases.
Advanced Search allows for a more detailed specification of the data object class in which to search, and allows searches that use multiple attributes.
Small Molecule Search permits users to query the Reactome database by specifying a small molecule by name or by structure.