Individual skill

pubmed-topic-recommend

Generate ~5 actionable research topic recommendations by querying PubMed E-utilities; use when a user provides a research direction/constraints and needs evidence-backed topic ideas quickly.

scientific-skills/Evidence Insight/pubmed-topic-recommend/SKILL.md

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Repository stars (not skill ratings): 2,046
Repository last updated: Sep 17, 2026
License: MIT

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bioinformatics Repository topic
computational-biology Repository topic
data-analysis Repository topic
ai Repository topic
biology Repository topic
cancer-genomics Repository topic
data-visualization Repository topic
differential-expression Repository topic
genomics Repository topic
medical Repository topic
research Derived category

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references/pubmed_api.mddoc · 1,309 bytes
scripts/run_topic_recommendation.pyruns · 10,080 bytes

Read excerpt

> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)

## When to Use

- You have a broad research direction (e.g., "immunotherapy biomarkers") and need **5 concrete, literature-grounded topic options** to choose from.
- You need **research direction suggestions** after a quick PubMed scan, with each suggestion tied to recent papers.
- You want **topic selection based on PubMed literature** under constraints (time range, publication type, population, method preference).
- You must propose **actionable topics with a clear gap/opportunity statement**, supported by at least 1-2 cited articles.
- You need to iteratively refine a PubMed query (keywords/MeSH, inclusion/exclusion terms) until results are sufficient for topic generation.

## Key Features

- Uses the **official PubMed E-utilities** interface for literature retrieval.
- Builds PubMed queries with:
  - keyword groups (`OR`) and exclusions (`NOT`)