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Agent skill

Tooluniverse Expression Data Retrieval

by wu-yc in wu-yc/LabClaw

Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports.

No licenceAuto-check passedResearch & Science

Install Tooluniverse Expression Data Retrieval

skills CLI
$ npx skills add wu-yc/LabClaw --skill tooluniverse-expression-data-retrieval -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI
$ gh skill install wu-yc/LabClaw tooluniverse-expression-data-retrieval --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy
$ git clone --depth 1 https://github.com/wu-yc/LabClaw.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/bio/tooluniverse-expression-data-retrieval .claude/skills/tooluniverse-expression-data-retrieval && rm -rf skills-src

Use ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.

Claude Code skills documentation · loads skills from .claude/skills/

Facts

Skill name
tooluniverse-expression-data-retrieval
GitHub stars
1.1k
Used in
2 other repos
Token cost
~2.6k tokens
SKILL.md length
557 words
Files
1
Skills in repo
68
Repo updated
First seen
Licence
None found

At a glance

Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports.

  • Works in 4 steps: Clarification (When Needed) → Query Disambiguation → Data Retrieval (Internal) → …
  • Users need expression data
  • SKILL.md covers Workflow Overview, Phase 0: Clarification (When…, Phase 1: Query Disambiguation and Phase 2: Data Retrieval…, plus 7 more sections
  • Reaches ebi.ac.uk

What it does

Tooluniverse Expression Data Retrieval is an agent skill from wu-yc/LabClaw. Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports. Creates comprehensive dataset profiles with metadata, sample information, and download links. Use when users need expression data, omics datasets, or mention ArrayExpress (E-MTAB, E-GEOD) or BioStudies (S-BSST) accessions.

Its SKILL.md is about 2.6k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.

It sits in Research & Science, covering Bioinformatics. The repository describes itself as: LabClaw – Operating Layer for LabOS (Stanford-Princeton AI Co-Scientists).

When your agent uses it

  • Users need expression data
  • Mention ArrayExpress (E-MTAB
  • BioStudies (S-BSST) accessions

Example prompts

  • “Use the tooluniverse-expression-data-retrieval skill to retrieve gene expression and omics datasets from ArrayExpress and BioStudies with gene…”
  • “/tooluniverse-expression-data-retrieval”

Requirements

  • Python 3

Workflow steps

4 steps, taken from the step headings in SKILL.md.

  1. Clarification (When Needed)
  2. Query Disambiguation
  3. Data Retrieval (Internal)
  4. Report Dataset Profile

What it can do on your machine

Read from SKILL.md and the folder at commit df37802. It shows what the files ask for, not the result of running them.

  • Tool permissions

    Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.

    From allowed-tools in the SKILL.md frontmatter.

  • Runs code

    No scripts in the folder and no shell commands in SKILL.md (its code samples are python and markdown).

    From the folder's file list and the shell code blocks in SKILL.md.

  • Network

    Hosts in commands or code, which the agent is likely to contact:

    • ebi.ac.uk

    From URLs in SKILL.md, links to its own repository left out.

  • Credentials

    Names no API keys, tokens, secrets or passwords.

    From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.

Context cost

Tooluniverse Expression Data Retrieval loads about 2.6k tokens when it runs. Until then it costs about 105 tokens; SKILL.md has 557 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~105
When it runs · the whole SKILL.md, loaded when a task matches
~2.6k

Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.

Safety

Auto-check passed

The automated check found no risky patterns in SKILL.md.

Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.

SKILL.md

Without a licence we can't republish the file, so here is its outline and opening line. It has 557 words (~2,557 tokens).

“Retrieve gene expression experiments and multi-omics datasets with proper disambiguation and quality assessment.”

— opening of SKILL.md by wu-yc
name
tooluniverse-expression-data-retrieval

Read the full SKILL.md on GitHub

Files

Just SKILL.md in skills/bio/tooluniverse-expression-data-retrieval of wu-yc/LabClaw.

Open the folder on GitHubat commit df37802

Used in 2 other repositories

We found 2 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 2 other GitHub owners. This page covers the copy in wu-yc/LabClaw, which our catalogue first saw on October 7, 2026.

Compare with similar skills

Tooluniverse Expression Data Retrieval next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.

Tooluniverse Expression Data Retrieval compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Tooluniverse Expression Data Retrieval this skillwu-yc/LabClaw1.1k2 repos~2.6kAutomated safety check: PassNone
Alphagenome Single Variant Analysisgoogle-deepmind/science-skills3.2k2 repos~3kAutomated safety check: NotesApache-2.0
13C Metabolic Flux AnalysisK-Dense-AI/scientific-agent-skills48k1 repos~3.2kAutomated safety check: PassMIT
Clinvar Databasegoogle-deepmind/science-skills3.2k2 repos~3.9kAutomated safety check: NotesApache-2.0
Metabolic Study Planneraiming-lab/AutoResearchClaw15k—~1.9kAutomated safety check: PassMIT
Dbsnp Databasegoogle-deepmind/science-skills3.2k2 repos~3.4kAutomated safety check: NotesApache-2.0

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More from wu-yc/LabClaw

All 68 skills in this repo

  • Tooluniverse Chemical Compound Retrieval

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    Retrieves chemical compound information from PubChem and ChEMBL with disambiguation, cross-referencing, and quality assessment.

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  • Tooluniverse Clinical Guidelines

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  • Tooluniverse Disease Research

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    Generate comprehensive disease research reports using 100+ ToolUniverse tools.

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  • Tooluniverse Drug Repurposing

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    Identify drug repurposing candidates using ToolUniverse for target-based, compound-based, and disease-driven strategies.

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  • Tooluniverse Gene Enrichment

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    Perform comprehensive gene enrichment and pathway analysis using gseapy (ORA and GSEA), PANTHER, STRING, Reactome, and 40+ ToolUniverse tools.

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  • Tooluniverse Gwas Drug Discovery

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    Transform GWAS signals into actionable drug targets and repurposing opportunities.

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Categories

Questions about Tooluniverse Expression Data Retrieval

What does Tooluniverse Expression Data Retrieval do?

Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports. Tooluniverse Expression Data Retrieval is an agent skill from wu-yc/LabClaw. Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports.

When should I use Tooluniverse Expression Data Retrieval?

Tooluniverse Expression Data Retrieval fits situations like: users need expression data; mention ArrayExpress (E-MTAB; bioStudies (S-BSST) accessions.

How do I install Tooluniverse Expression Data Retrieval in Claude Code?

Run `npx skills add wu-yc/LabClaw --skill tooluniverse-expression-data-retrieval -a claude-code`. Or copy the skill folder (skills/bio/tooluniverse-expression-data-retrieval in wu-yc/LabClaw) into .claude/skills/tooluniverse-expression-data-retrieval in your project. Claude Code loads it when a task matches its description.

How do I install Tooluniverse Expression Data Retrieval in Codex?

Run `npx skills add wu-yc/LabClaw --skill tooluniverse-expression-data-retrieval -a codex`. Or copy the skill folder (skills/bio/tooluniverse-expression-data-retrieval in wu-yc/LabClaw) into .agents/skills/tooluniverse-expression-data-retrieval in your project. Codex loads it when a task matches its description.

Can I use Tooluniverse Expression Data Retrieval in Cursor, Gemini CLI or GitHub Copilot?

Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add wu-yc/LabClaw --skill tooluniverse-expression-data-retrieval -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/tooluniverse-expression-data-retrieval, .gemini/skills/tooluniverse-expression-data-retrieval, .github/skills/tooluniverse-expression-data-retrieval and .opencode/skills/tooluniverse-expression-data-retrieval in your project.

What does Tooluniverse Expression Data Retrieval need to run?

SKILL.md names no scripts, command-line tools or credentials: Tooluniverse Expression Data Retrieval is instructions for the agent only. Our summary lists: Python 3.

Does Tooluniverse Expression Data Retrieval access the network?

SKILL.md names 1 domain. In commands or code: ebi.ac.uk; the agent is likely to contact it when it follows the instructions. This is read from the text; nothing was executed.

Is Tooluniverse Expression Data Retrieval safe to install?

Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.

What licence does Tooluniverse Expression Data Retrieval use?

No licence was found for Tooluniverse Expression Data Retrieval or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.

How many tokens does Tooluniverse Expression Data Retrieval use?

About 2.6k tokens (SKILL.md is roughly 10k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.

What are the alternatives to Tooluniverse Expression Data Retrieval?

Skills that share tags, products or a category with Tooluniverse Expression Data Retrieval: Alphagenome Single Variant Analysis (google-deepmind/science-skills, 3.2k stars), 13C Metabolic Flux Analysis (K-Dense-AI/scientific-agent-skills, 48k stars), Clinvar Database (google-deepmind/science-skills, 3.2k stars) and Metabolic Study Planner (aiming-lab/AutoResearchClaw, 15k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Tooluniverse Expression Data Retrieval?

wu-yc (a GitHub user) maintains it in wu-yc/LabClaw, which has 1,055 GitHub stars. The repository holds 68 skills in this directory. The repository was last updated on March 19, 2026.

Source: wu-yc/LabClaw on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.