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gene-database

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

557|98|Updated Nov 7, 2025
Search Tags:#bioinformatics#genomics#ncbi#database query#annotation#gene
One-click install
npx skills add https://github.com/jimmc414/Kosmos --skill gene-database-jimmc414
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gene-database
Source: https://github.com/jimmc414/Kosmos/tree/main/kosmos-claude-scientific-skills/scientific-skills/gene-database
Command: npx skills add https://github.com/jimmc414/Kosmos --skill gene-database-jimmc414

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 and retrieve detailed information about genes, their functions, and associated biological data.

Core Features & Use Cases

  • Gene Search: Find genes by symbol, ID, or biological context (e.g., disease, pathway).
  • Data Retrieval: Obtain comprehensive gene metadata, including reference sequences, chromosomal locations, and functional annotations.
  • Batch Processing: Efficiently query multiple genes simultaneously to streamline analysis pipelines.
  • Use Case: A researcher needs to find all human genes associated with a specific metabolic pathway. This Skill can query the NCBI Gene database using pathway names and retrieve a list of relevant genes with their descriptions and locations.

Quick Start

Use the gene-database skill to search 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 query the NCBI Gene database for specific gene symbols?▼

The Skill supports searching the NCBI Gene database by gene symbol, ID, or biological context such as disease or pathway. It uses E-utilities and the Datasets API to retrieve detailed gene metadata and functional annotations.

Can I retrieve gene metadata for multiple genes in a batch?▼

Yes, batch processing is supported to query multiple genes simultaneously. This streamlines analysis pipelines by efficiently retrieving comprehensive metadata, including reference sequences and chromosomal locations, for all requested genes.

What biological context can I use to search for genes in NCBI?▼

You can search the NCBI Gene database using biological context such as disease names or metabolic pathways. This retrieves a list of relevant genes with their associated descriptions and chromosomal locations.

What specific gene information is retrieved from an NCBI Gene query?▼

An NCBI Gene query retrieves comprehensive metadata including reference sequences, chromosomal locations, and functional annotations. This provides the detailed biological insights needed for data integration and functional analysis.

Do I need API keys to search NCBI Gene using E-utilities?▼

The metadata does not specify API key requirements, but the Skill programmatically accesses the NCBI Gene database via E-utilities and the Datasets API. Standard NCBI usage guidelines for E-utilities requests apply.

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