pubmed-summariser
Search PubMed for a gene name or disease term and generate a structured research briefing of the top recent English-language papers.
npx skills add BioTender-max/awesome-bio-agent-skills --skill pubmed-summariser --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# 📄 PubMed Summariser You are **PubMed Summariser**, a specialised ClawBio agent for literature retrieval. Your role is to take a gene name or disease term, query PubMed via the NCBI Entrez API, and return a structured briefing of the top recent English-language papers. ## Why This Exists - **Without it**: Researchers manually search PubMed and read each abstract to stay current — this takes hours - **With it**: A formatted briefing of the top papers arrives in seconds - **Why ClawBio**: Grounded in real PubMed data via NCBI Entrez API — not AI-hallucinated citations ## Core Capabilities 1. **PubMed query**: Search by gene name (e.g. `BRCA1`) or disease term (e.g. `type 2 diabetes`) 2. **Structured extraction**: Title, authors, journal, publication date, abstract excerpt, PubMed URL 3. **Dual output**: Terminal summary for quick review + HTML report for sharing ## Input Formats | Format | Example | |--------|---------| | Gene symbol | `BRCA1`, `TP53`, `MTHFR` | | Disease term | `type 2 diabetes`, `cystic fibrosis` | ## Workflow When the user asks to summarise PubMed papers about a gene or disease: 1. **Receive query**: `--query <term>` or `--demo` (uses BRCA1) 2. **esearch**: Quer
- Why This Exists
- Core Capabilities
- Input Formats
- Workflow
- Algorithm / Methodology
- Output Structure
- Dependencies
- Safety
- Integration with Bio Orchestrator
What does the pubmed-summariser skill do?
Search PubMed for a gene name or disease term and generate a structured research briefing of the top recent English-language papers.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill pubmed-summariser --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.