Ubergraph

Integrated OBO ontology store

• Merged set of mutually referential OBO ontologies:
  • Uberon anatomy
  • Cell Ontology (CL)
  • Gene Ontology (GO)
  • Biospatial Ontology (BSPO)
  • Phenotype and Trait Ontology (PATO)
  • Human Phenotype Ontology (HPO)
  • Monarch Disease Ontology (MONDO)
  • Chemical Entities of Biological Interest (ChEBI)
  • Relations Ontology (RO)
  • Environmental conditions, treatments and exposures ontology (ECTO)
  • Environment Ontology (ENVO)
  • Ontology for Biomedical Investigations (OBI)
  • Medical Action Ontology (MAXO)
  • Evidence and Conclusion Ontology (ECO)
  • NCBI Taxonomy (slim version)
  • Experimental Factor Ontology (EFO)
  • Protein Ontology (PRO)
  • NCIt OBO Edition (NCIT)
• Precomputed OWL classification (class hierarchy)
• Materialized “class relations” from existential property restrictions (in separate named graphs)
• Blazegraph RDF triplestore; SPARQL query interface

SPARQL endpoint: https://stars-app.renci.org/ubergraph/sparql

• Query interface in YASGUI: https://api.triplydb.com/s/_26lcKdBY

Support

Development of Ubergraph has been supported by the NCATS Biomedical Data Translator project, as well as by RENCI.