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bio-entrez-search

Maintainer FreedomIntelligence · Last updated April 1, 2026

Search NCBI Entrez databases (PubMed, gene, nucleotide, protein, SRA).

OpenClawNanoClawAnalysisReproductionbio-entrez-search🧠 bioos extended suitebioos extended bioinformatics suitesearch

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-entrez-search

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

Search NCBI databases using Biopython's Entrez module (ESearch, EInfo, EGQuery utilities).
handle = Entrez.einfo() record = Entrez.read(handle) handle.close() print(record['DbList']) # ['pubmed', 'protein', 'nucleotide',...].

Source Doc

Excerpt From SKILL.md

Entrez.esearch() - Search a Database

Search any NCBI database and get matching record IDs.

Key Parameters:

Parameter	Description	Default
`db`	Database to search	Required
`term`	Search query	Required
`retmax`	Max IDs to return	20
`retstart`	Starting index (pagination)	0
`usehistory`	Store results on server	'n'
`sort`	Sort order	database-specific
`datetype`	Date field to search	'pdat'
`reldate`	Records from last N days	None
`mindate`	Start date (YYYY/MM/DD)	None
`maxdate`	End date (YYYY/MM/DD)	None

ESearch Result Fields:

Entrez.einfo() - Database Information

Get information about available databases or specific database fields.


## Get info about specific database

handle = Entrez.einfo(db='nucleotide')
record = Entrez.read(handle)
handle.close()

print(f"Description: {record['DbInfo']['Description']}")
print(f"Record count: {record['DbInfo']['Count']}")