obo-foundry-ontologies

Query veterinary ontologies with SPARQL for cross-species data annotation.

27|6|Updated Mar 17, 2026
One-click install
npx skills add https://github.com/OpenVet-Projects/VetClaw --skill obo-foundry-ontologies
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: obo-foundry-ontologies
Source: https://github.com/OpenVet-Projects/VetClaw/tree/main/skills/databases/obo-foundry-ontologies
Command: npx skills add https://github.com/OpenVet-Projects/VetClaw --skill obo-foundry-ontologies

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Integrates standardized veterinary ontologies to enable cross-species reasoning and consistent data annotation.

Core Features & Use Cases

  • Ontology access for VBO, UBERON, HP/MP, CHEBI, and NCBITaxon to standardize terms and enable cross-dataset mapping.
  • SPARQL-friendly querying and programmatic lookup to connect breeds, anatomy, phenotypes, chemicals, and taxonomy across species.
  • Use cases include breed-disease linkage, anatomical standardization in EHRs, and translational pharmacology mappings between veterinary and human datasets.
  • Example: Create a cross-species query to map canine kidney terms to human equivalents for toxicity assessment.

Quick Start

Load the VBO and UBERON ontologies to begin term lookups and cross-species equivalence mapping in your project.

Frequently Asked Questions about obo-foundry-ontologies

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I map anatomical terms across species using veterinary ontologies?

Cross-species anatomical mapping is achieved by querying the UBERON ontology to standardize anatomical terms, enabling consistent data annotation and equivalence mapping between veterinary and human datasets.

Can I use SPARQL to link dog breeds to disease phenotypes?

Yes, you can execute SPARQL queries across the VBO, HP, and MP ontologies to establish breed-disease linkages and connect specific phenotypes to disease data for dogs, cats, and horses.

What ontologies do I need for translational pharmacology mapping in veterinary medicine?

Translational pharmacology mapping requires the ChEBI ontology for chemicals and NCBITaxon for taxonomy, allowing you to connect pharmacological data across species and map veterinary datasets to human equivalents.

Does this approach support standardized term lookup for electronic health records?

Ontology standardization supports electronic health records by applying VBO and UBERON lookups to ensure breed and anatomy terms remain consistent across datasets, enabling accurate cross-species reasoning within EHR systems.

What is the best way to query cross-species toxicity assessments for canine kidneys?

The best way to assess cross-species toxicity is creating a SPARQL query that maps canine kidney terms via UBERON to their human equivalents, facilitating translational toxicity comparisons between datasets.