Overview
WikiPathways supports community curation, review and versioned releases. Its pathway records can connect metabolite measurements with other molecular data.
What can this tool do?
Common uses
- Locate a pathway map for interpretation.
- Download pathway definitions for compatible enrichment tools.
Scientific fit
Primary function
Reference data and database search
Data compatibility
Inputs
Compound list or annotations, Molecular structures
Outputs
Pathway or reaction data
Input formats
Other, Pathway, species or identifier queries
Output formats
Other, GPML, GMT, RDF and pathway images
Scope and considerations
Designed for
- Locate a pathway map for interpretation.
Not designed for
- Using pathway membership alone as proof of a mechanistic change.
Important requirements
- A species and pathway or molecular identifiers appropriate to the question.
Considerations
- Inspect provenance, curation status and identifier coverage; pathway completeness differs between organisms and topics.
Access and documentation
Open community pathway content; consult release and attribution guidance.
Evidence and review
Documentation-based editorial review on 7 September 2026. Scope and limitations summarize the linked official sources; software execution and developer verification were not assessed.
Core publications
Resource papers, direct updates and tool-specific methods. Selection policy.
- Agrawal A, Balcı H, Hanspers K, et al. WikiPathways 2024: next generation pathway database. Nucleic Acids Res 52, D679-D689 (2024). doi:10.1093/nar/gkad960
Related tools
Entry history
Changes to this catalogue entry, not the tool's software release history. Acceptance and editorial review are separate.
- 2026-09-08 · Entry update
Audit core publications across existing tools
View change · Entry at this revision - 2026-09-07 · First committed entry
Add 50 documented metabolomics resources
View change · Entry at this revision