Mondo Disease Ontology

Schema and generated objects for biolink data model and upper ontology

SQL and SQLite builds of OWL ontologies

Graph-based modeling environment for biology, including prototype editor and services

Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species

Claude skills for a variety of curation and knowledge-based tasks. We currently have 3 skills included, but intend to grow this.

Common value sets (enums) for science, biomedicine, computing, and other areas

Best practices for BBOP group repos, intended for coding agents and humans

A simple Python wrapper for multiple deep research tools including OpenAI Deep Research, FutureHouse Falcon, and Perplexity AI.

A copier template for your next LinkML project

Validate that supporting text quotes in your data actually appear in their cited references

Copier template for adding AI integrations to a GH repo

Demonstration of AI review of existing functional annotations

A Python CLI wrapper for running AI coder agents (claude code, gemini-cli, etc)

MCP approaches for getting textual representations of scientific literature from PMIDs, DOIs, etc.

Disease Mechanisms KB