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gene-database

Query NCBI Gene database for gene information via E-utilities and Datasets API.

1|Updated Jan 14, 2026
Search Tags:#bioinformatics#genomics#ncbi#annotation#gene#gene id#gene symbol
One-click install
npx skills add https://github.com/Sologa/codex-pipeline --skill gene-database-sologa
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gene-database
Source: https://github.com/Sologa/codex-pipeline/tree/main/.codex/skills/gene-database
Command: npx skills add https://github.com/Sologa/codex-pipeline --skill gene-database-sologa

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill provides programmatic access to the NCBI Gene database, enabling users to efficiently search for, retrieve, and analyze gene information, overcoming the limitations of manual web browsing for complex or large-scale genomic data tasks.

Core Features & Use Cases

  • Gene Search & Retrieval: Query genes by symbol, ID, or biological context (e.g., disease, pathway). Retrieve detailed information including sequences, annotations, and chromosomal locations.
  • Batch Processing: Efficiently look up multiple genes simultaneously, saving time and reducing API call overhead.
  • Use Case: Annotate a list of candidate genes from a GWAS study by fetching their descriptions, known functions, and associated phenotypes from NCBI Gene.

Quick Start

Use the gene-database skill to find detailed information for the human gene with the symbol BRCA1.

Frequently Asked Questions about gene-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I retrieve gene annotations and chromosomal locations from the NCBI Gene database?▼

Retrieve gene annotations from the NCBI Gene database by querying gene symbols or IDs to fetch structured data including RefSeqs, GO annotations, and chromosomal locations.

What is the best way to look up multiple NCBI genes simultaneously for bioinformatics analysis?▼

The best way to look up multiple NCBI genes simultaneously is using batch processing, which efficiently queries multiple genes at once to reduce API call overhead for large-scale genomics tasks.

Can I fetch GO annotations and RefSeqs for a list of candidate genes from a GWAS study?▼

Yes, you can fetch GO annotations and RefSeqs for a list of candidate genes from a GWAS study by querying the NCBI Gene database with your gene symbols or IDs to retrieve detailed functional information.

Does this NCBI gene retrieval approach work with gene symbols and biological contexts like pathways?▼

Yes, querying the NCBI Gene database works with both gene symbols and biological contexts such as pathways or diseases, providing structured access to gene nomenclature and detailed functional analysis data.

What are the limitations of using NCBI E-utilities and Datasets API for gene information retrieval?▼

Limitations of using NCBI E-utilities and Datasets API for gene information retrieval include potential query rate limits and dependency on the structured access provided by the API for complex genomic data tasks.

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