Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx agentmods add skills/google-deepmind/science-skills/reactome_databasenpx skills add google-deepmind/science-skills --skill reactome_databasegit clone --depth 1 https://github.com/google-deepmind/science-skillsWhat it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5 | $0.00073 | $0.02801 |
| Opus 5 | $0.00036 | $0.01401 |
| Sonnet 5 | $0.00015 | $0.00560 |
| Haiku 4.5 | $0.00007 | $0.00280 |
Grade A, and why
reactome-database scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 3d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 282 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Reactome Analysis & Content Service
Prerequisites
uv: Read theuvskill and follow its Setup instructions to ensureuvis installed and on PATH.- User Notification: If .licenses/reactome_database_LICENSE.txt does not already exist in the workspace root directory then (1) prominently notify the user to check the terms at https://reactome.org/license and https://reactome.org/cite, then (2) create the file recording the notification text and timestamp.
Overview
Reactome is a free, open-source, curated pathway database. This skill wraps both
the Analysis Service (https://reactome.org/AnalysisService/) and the
Content Service (https://reactome.org/ContentService/) providing pathway
enrichment analysis, identifier mapping, reaction details, pathway hierarchy
navigation, diagram export, cross-reference mapping, and search.
When to Use This Skill
- Performing pathway enrichment (overrepresentation) analysis on gene/protein lists
- Retrieving analysis results using a token from previous enrichment
- Identifying which genes or proteins were not found in a pathway analysis
- Analyzing gene expression data against pathway annotations
- Mapping identifiers to Reactome entities across species
- Retrieving reaction participants (inputs, outputs, catalysts, regulators)
- Navigating pathway hierarchy and listing top-level pathways
- Finding which complexes or sets contain a protein
- Exporting pathway/reaction diagrams (PNG/SVG) with gene highlighting
- Cross-referencing identifiers across databases (UniProt, Ensembl, etc.)
- Searching the Reactome knowledgebase
- Downloading analysis reports (PDF, CSV, JSON)
- Comparing pathways across species
Common Species IDs
Reference list for common research organisms:
- Homo sapiens
- ID: 9606
- Mus musculus (Mouse)
- ID: 48892
- Rattus norvegicus (Rat)
- ID: 48895
Common Pathway IDs
Reference list for commonly used Reactome pathway stable IDs:
What ships with it
3 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 3d ago First seen · 282 lines · 73 tokens per session scan A bccfb05ac68a
reactome-database is a skill published in the GitHub repository google-deepmind/science-skills (2,814 stars, last pushed 1mo ago), licensed Apache-2.0. It adds 73 tokens to every session and 2,801 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
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