PubMed Database
Direct PubMed and NCBI E-utilities workflows: MeSH queries, PMID lookup, citation retrieval, and repeatable literature monitoring.
- What
- Direct PubMed and NCBI E-utilities workflows: MeSH queries, PMID lookup, citation retrieval, and repeatable literature monitoring.
- Cost
- Free
- Needs
- Use "PubMed Database" with your Muse.
- Install
- Copy the installer prompt below into your Muse — your agent does the rest.
Curated by Skill Harbor: a research skill for biomedical literature that goes straight to PubMed instead of general web search. It teaches query construction with Boolean operators and PubMed field tags (title, abstract, author, journal, MeSH, publication type, date, language), MeSH term and subheading syntax, and publication-type plus date filters for systematic-review style passes. The NCBI E-utilities workflow (esearch, esummary, efetch, elink) comes with a Python example for repeatable, API-backed literature monitoring, plus output discipline: record the exact search string, database, date searched, filters, and result count so any pass is reproducible. A review checklist covers valid field tags, MeSH plus free-text pairing for newer topics, explicit date ranges, API keys loaded from the environment, and rate-limit respect. By @affaan-m, listed here with credit to its creator. From the affaan-m/ECC repository (MIT). Honest caveats: pure guidance, nothing to install; an NCBI API key and email are recommended for production scripts (keep keys in environment variables, never in committed files), and this is a literature-search tool, not medical advice. Skill Harbor never reviews the code, review it yourself before use.
Version:
Install
Copy the install package below, then paste it into MuseThe install prompt below already includes the vetting steps: your agent follows the community checklist before installing anything with executable code. Want more?
Use "PubMed Database" with your Muse. Prerequisites: none for searching (PubMed is free). For scripted E-utilities use, set NCBI_EMAIL and NCBI_API_KEY as environment variables. Pure guidance skill, nothing to install. 1. Open the skill: https://github.com/affaan-m/ECC/blob/main/skills/scientific-db-pubmed-database/SKILL.md and copy the full SKILL.md text. 2. Paste it into a chat with Muse and add: "Build a PubMed query for [research question] using MeSH terms plus free-text synonyms, with a 2020:2026 date filter." 3. For monitoring, ask: "Write a Python script using the E-utilities workflow to run this search weekly and log results with full output discipline." Tip: pair MeSH terms with title/abstract synonyms for newer topics where terminology still varies. Safety: a skill is plain-text instructions; it runs nothing by itself. Keep API keys in environment variables, respect NCBI rate limits, and remember this is a literature-search tool, not medical advice.
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Questions
How do I install a build?
Every product page includes a copy-paste install prompt. Paste it into your Muse and it sets the build up for you — no manual configuration.
Where does my money go?
Straight to the seller. Skill Harbor never processes payments: checkout happens on the seller’s own page, usually Stripe.
What does the ✓ next to a creator’s name mean?
It means we confirmed the identity of the person behind the listing. It says nothing about the code itself — always check a build before installing it.