Quickgo Database
Query the QuickGO and Evidence & Conclusion Ontology (ECO) REST API.
Install
npx skills add google-deepmind/science-skills --skill quickgo-database -g -a claude-code -y- Repository
- google-deepmind/science-skills3.4k
- Category
- Engineering
- Updated
- 12d ago
- License
- Apache-2.0
- Context cost
- Lightabout 1,306 tokens
- Runs scripts
- Yes, review before use
What it does
Query the QuickGO and Evidence & Conclusion Ontology (ECO) REST API. Use this when you need to map genes to biological processes, molecular functions, or cellular components, find genes associated with a specific pathway/GO term, or explore the Gene Ontology hierarchy. Do not use for querying drug targets (use OpenTargets) or mechanistic signaling pathway diagrams (use KEGG).
QuickGO Database Skill
GO (Gene Ontology) annotations are one of the main ways to label a gene's function. QuickGO is a fast, web-based browser for the GO and Evidence & Conclusion Ontology (ECO), maintained by the Gene Ontology Annotation (GOA) group at EMBL-EBI.
It provides a centralised resource to explore the functional attributes of gene products (proteins, RNA, and complexes). It is a primary tool for functional annotation mapping since it allows you to link a gene (e.g., USH2A) to its specific biological processes (e.g. sensory perception of light stimulus), molecular functions, and cellular components.
Prerequisites
uv: Read theuvskill and follow its Setup instructions to ensureuvis installed and on PATH.- User Notification: If .licenses/quickgo_database_LICENSE.txt does not already exist in the workspace root directory then (1) prominently notify the user to check the terms at https://www.ebi.ac.uk/QuickGO/ and https://www.ebi.ac.uk/QuickGO/api/index.html, then (2) create the file recording the notification text and timestamp.
Usage
This skill provides a Python CLI wrapper scripts/quickgo_tool.py that queries
the QuickGO REST API. It handles formatting the requests, respecting rate
limits, and safely storing the potentially large JSON responses.
