ontology-term-resolution agent skill by K-Dense-AI
Resolves free-text scientific labels to ontology term IDs and validates existing CURIEs against the EBI Ontology Lookup Service (OLS4). Also looks up prefixes in Bioregistry, resolves compact identifiers via Identifiers.org, maps lab shorthand with ZOOMA, and builds Ontobee term pages. Use whenever an ontology identifier must be produced or checked - annotating tissue, cell type, disease, phenotype, assay, chemical, organism, sex, or developmental stage fields; preparing metadata for GEO, ENA, BioSamples, CELLxGENE, HCA, or ISA-Tab submission; auditing a metadata table of term IDs; checking whether a term is obsolete and what replaced it; or deciding HPO vs HP. Triggers include "ontology term", "ontology ID", "CURIE", "controlled vocabulary", "UBERON", "CL:", "MONDO", "HPO", "EFO", "ChEBI", "NCBITaxon", "GO term", "PATO", "Zooma", "Bioregistry", "Identifiers.org", "Ontobee", "annotate this tissue/cell type/disease", and any request to emit or verify an identifier shaped like PREFIX:0001234.
Source and license
| Publisher | K-Dense-AI |
|---|---|
| Repository | K-Dense-AI/claude-scientific-skills |
| License | MIT |
| Snapshot | 2026-10-22 |
| Last repository commit | 2026-10-12 |
| Instruction size | 1,846 words; 222 lines |
| Bundled files | 12 |
Suede Skill Check: 88/100 · B
Report snapshot · · graded-v2
The rubric totals 100 points; published scores are capped at 99. Security scan: not scanned.
Source revision: a1043ef544e3. Report version 476de3e7459b. Badge URLs follow the latest listing; save the report to keep this version.
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What to review next
- Description length: 1 of 5 points. 5 for 150–600 characters; 3 for 100–900; 1 for 50–1,024.
- Boundary clause: 0 of 4 points. 4 when the description says when not to use the skill (“Not for …”, “Do not use …”, “Use … instead”).
Add declarations and bundled files when they describe the skill’s actual needs. Update the source, then request a fresh review with the changed commit or PR.
| Component | Points earned | Available |
|---|---|---|
| Structural checks | 56 | 56 |
| Description length | 1 | 5 |
| Boundary clause | 0 | 4 |
| Example request | 3 | 3 |
| Instruction depth | 7 | 7 |
| Reference files | 3 | 3 |
| Bundled scripts | 2 | 2 |
| Recent maintenance | 9 | 9 |
| Curated-list citations | 3 | 7 |
| Tool permissions declared | 2 | 2 |
| Compatibility declared | 2 | 2 |
The published score is capped at 99. It measures the published files, documentation and maintenance signals. Security scan: not scanned. This assessment does not include a runtime test or a full installation-dependency review.
Install ontology-term-resolution
The skills CLI works with Claude Code, Codex, Cursor and other agents; the other routes copy the folder by hand.
npx skills add https://github.com/K-Dense-AI/claude-scientific-skills/tree/main/skills/ontology-term-resolutiontmp="$(mktemp -d)"
git clone --depth 1 https://github.com/K-Dense-AI/claude-scientific-skills.git "$tmp/repo"
mkdir -p .claude/skills
cp -R "$tmp/repo/"skills/ontology-term-resolution .claude/skills/
rm -rf "$tmp"tmp="$(mktemp -d)"
git clone --depth 1 https://github.com/K-Dense-AI/claude-scientific-skills.git "$tmp/repo"
mkdir -p .agents/skills
cp -R "$tmp/repo/"skills/ontology-term-resolution .agents/skills/
rm -rf "$tmp"For a user-level install, copy the folder to ~/.claude/skills/ (Claude Code) or ~/.agents/skills/ (Codex). Inside Codex, $skill-installer can also fetch a skill from GitHub. New to skills? Read How to install agent skills in Claude Code, Codex and Cursor.
K-Dense-AI/claude-scientific-skills is third-party code. Read SKILL.md and any bundled scripts before you install it.
Two badges for ontology-term-resolution
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[](https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/)
[](https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/)<a href="https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/"><img src="https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/score.svg" alt="Suede Skill Check: 88/100" width="160" height="175"></a>
<a href="https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/"><img src="https://suedeai.directory/k-dense-ai/claude-scientific-skills/ontology-term-resolution/badge.svg" alt="Suede Skill Check: Grade B" width="160" height="175"></a>Suede Certified on the shield refers to this published structural quality check. Security scan: not scanned. Read the methodology.
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