What is the PubMed Research Assistant skill?

It is a specialized capability for Claude Code that allows for precise searching, Boolean querying, and programmatic retrieval of biomedical literature from the National Library of Medicine.

Does this skill support the NCBI E-utilities API?

Absolutely. It provides documentation and implementation patterns for ESearch, EFetch, ESummary, EPost, and other core NCBI API endpoints for batch processing.

Can I use MeSH terms with this skill?

Yes, it supports advanced MeSH (Medical Subject Headings) queries, including subheadings, major topic filters, and automatic term mapping.

How does it help with systematic reviews?

It offers structured search frameworks like PICO (Population, Intervention, Comparison, Outcome) and example queries designed specifically for high-quality meta-analyses.

PubMed Research Assistant

Name: PubMed Research Assistant
Author: Sologa

bySologa

0•

Data Science & ML

Accesses and queries the PubMed database for biomedical literature, systematic reviews, and citation management.

PubMed Research Assistant empowers Claude to perform deep literature searches and data extraction from the U.S. National Library of Medicine. It enables complex Boolean queries using MeSH terms, systematic review automation through the PICO framework, and programmatic access via the E-utilities REST API. Whether you are conducting meta-analyses, building automated literature monitoring workflows, or retrieving specific citations, this skill provides the precision tools needed to navigate and process millions of life science records.

Key Features

010 GitHub stars

02Advanced MeSH and Boolean query construction

03Programmatic access via NCBI E-utilities API (ESearch, EFetch)

04Citation matching and batch record retrieval via PMIDs/DOIs

05Systematic review automation using the PICO framework

06Advanced filtering by publication type, date, and text availability

Use Cases

01Automating the extraction of abstracts and metadata for data science projects

02Monitoring new publications in specific biomedical fields using saved search logic

03Conducting comprehensive systematic literature reviews for medical research

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add sologa/codex-pipeline pubmed-database

For use in Claude.ai and ChatGPT

Download Skill