is a Data Source.
It is part of the Ber collection.
WikiPathways is an open, collaborative platform dedicated to the curation of biological pathways. The database contains 1,913 human-curated pathways across 27 species with 36,334 gene products and 7,052 metabolites, supporting multiple data formats (GPML, GMT, RDF) and programmatic access via SPARQL endpoints and web APIs. Community-driven curation with version control and CI/CD infrastructure enables rapid pathway annotation and knowledge sharing in an open science framework.
pathways, genomics, biomedical
infores:wikipathways
Unknown
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| wikipathways.gpml | WikiPathways GPML | gpml | Product | xml | Pathways in Graphical Pathway Markup ... |
| wikipathways.gmt | WikiPathways GMT | gmt | Product | tsv | Pathways in Gene Matrix Transposed (G... |
| wikipathways.rdf | WikiPathways RDF | rdf | Product | ttl | Pathways in RDF (Resource Description... |
| wikipathways.sparql | WikiPathways SPARQL Endpoint | sparql.wikipathways.org | ProgrammingInterface | ❔ | SPARQL endpoint for querying WikiPath... |
| wikipathways.api | WikiPathways API | ui | ProgrammingInterface | ❔ | Web service API for programmatic acce... |
| wikipathways.web | WikiPathways Web Interface | www.wikipathways.org | GraphicalInterface | ❔ | The main web interface for browsing, ... |
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| spoke.graph | SPOKE Graph | ❔ | GraphProduct | ❔ | The SPOKE knowledge graph containing ... |
| ubkg.neo4j | UBKG Neo4j Docker Distribution | ubkg-downloads.xconsortia.org | GraphProduct | ❔ | Turnkey neo4j distributions that depl... |
| ubkg.csv | UBKG Ontology CSV Files | ubkg-downloads.xconsortia.org | GraphProduct | csv | Ontology CSV files that can be import... |
| alzkb.browser | AlzKB Graph Database Browser | login | GraphicalInterface | http | A browser interface for a knowledge g... |
| alzkb.data | AlzKB Data Release (Version 2.0.0) | v2.0.0 | GraphProduct | ❔ | Memgraph data release for AlzKB. |
| indra.cogex.code | INDRA CoGEx Build Code | indra_cogex | ProcessProduct | ❔ | INDRA CoGEx is a graph database integ... |
| rna-kg.kg.neo4j | RNA-KG Neo4j Dump | rnakgv20.dump (3.7 GB) | GraphProduct | neo4j | RNA-KG as a Neo4j Dump |
| rna-kg.kg.nodes | RNA-KG Nodes | nodes.csv (4.1 GB) | GraphProduct | csv | RNA-KG Nodes in CSV format |
| rna-kg.kg.edges | RNA-KG Edges | edges.csv (17.1 GB) | GraphProduct | csv | RNA-KG Edges in CSV format |
| genecards.pathway.data ⚠ | GeneCards Pathway Data | www.genecards.org | Product | http | Pathway information integrated from R... |
| ttd.wiki-pathways ⚠ | Target WikiPathways | P4-06-Target_wikipathway.txt | Product | txt | WikiPathways data for all targets |
| rampdb.database | RaMP-DB Integrated Database | rampdb.nih.gov | DatabaseProduct | ❔ | Multi-sourced relational database int... |
Created: June 05, 2025 | Last modified: December 20, 2025