Can I search for genes by disease or pathway?

Yes, the skill supports advanced query patterns using biological context, such as searching by phenotype, disease association, or specific Gene Ontology (GO) terms.

Does this skill require an NCBI API key?

While it works without one, using an NCBI API key is highly recommended for batch processing as it increases the rate limit from 3 to 10 requests per second.

How does the skill handle multiple species?

You can specify the organism or taxon ID in your queries to ensure results are filtered correctly for your species of interest, such as human, mouse, or specific bacterial strains.

What is the difference between E-utilities and the Datasets API?

E-utilities is a traditional, full-featured API for complex cross-database queries, while the Datasets API is optimized for streamlined gene data and sequence retrieval.

NCBI Gene Database Connector

Name: NCBI Gene Database Connector
Author: x-cmd

byx-cmd

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Ciencia de Datos y ML

Queries and retrieves comprehensive genetic data from NCBI using E-utilities and Datasets APIs for biological research and gene annotation.

The NCBI Gene Database skill provides a specialized interface for Claude to interact with the National Center for Biotechnology Information's genomic resources. It enables developers and bioinformaticians to search for genes by symbol or ID, retrieve detailed metadata—including reference sequences (RefSeqs), chromosomal maps, and Gene Ontology (GO) annotations—and perform complex biological context searches. By integrating both the traditional E-utilities and the modern Datasets API, this skill streamlines the process of functional analysis, sequence retrieval, and data validation, providing human-vetted scripts that handle rate limiting and multi-format outputs like JSON and FASTA.

Características Principales

018 GitHub stars

02Support for multiple data formats including JSON, XML, and FASTA

03Query NCBI Gene via E-utilities and Datasets APIs for comprehensive data

04Execute high-throughput batch gene lookups with automatic rate limiting

05Retrieve detailed metadata including RefSeqs, GO annotations, and phenotypes

06Search by biological context, pathways, or specific chromosomal locations

Casos de Uso

01Cross-referencing gene symbols with official nomenclature and IDs in research pipelines

02Building bioinformatics tools that require real-time functional and pathway data

03Automating gene annotation and metadata enrichment for genomic datasets

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add x-cmd/skill gene-database

For use in Claude.ai and ChatGPT

Download Skill