WikiPathways SPARQL endpoint

WikiPathways is a database of biological pathways maintained by and for the scientific community.

WikiPathways describes biological process and links these to external databases, like Ensembl, UniProt, ChEBI, Rhea, etc. With the core idea of the scientific community developing and curating biological knowledge in pathway models, WikiPathways lowers all barriers for accessing and using its content. Increasingly more content creators, initiatives, projects and tools have started using WikiPathways. Central in this growth and increased use of WikiPathways are the various communities that focus on particular subsets of molecular pathways such as for rare diseases and lipid metabolism. For the nanosafety data, the AOP ( and Nanomaterials ( Portal are of particular interest.

Data Storage & Online Accessibility
Knowledge base
API Type:
Applicability domain:
Bioinformatics, Ontologies, Nanoinformatics
Omics data analysis, Toxicology
Targeted industry:
Drugs, Nanotechnology, Chemicals, Food and feed
Targeted users:
Software developers, Researchers, Data modellers
Access type:
References and training materials:

Marvin Martens, Ammar Ammar, Anders Riutta, Andra Waagmeester, Denise N Slenter, Kristina Hanspers, Ryan A. Miller, Daniela Digles, Elisson N Lopes, Friederike Ehrhart, Lauren J Dupuis, Laurent A Winckers, Susan L Coort, Egon L Willighagen, Chris T Evelo, Alexander R Pico, Martina Kutmon, WikiPathways: connecting communities, Nucleic Acids Research, Volume 49, Issue D1, 8 January 2021, Pages D613–D621,

Provided by:
Maastricht University
Login required:
Implementation status:
Graphical user interface (GUI) available, Containerised, Application programming interface (API) available, Available as web service
Technology readiness level:
TRL 4 – technology validated in lab

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