What data formats are supported for gene retrieval?

The skill supports multiple formats including JSON for programmatic use, XML for metadata, and FASTA or GenBank for sequence analysis.

Does this skill require an NCBI API key?

While optional, using an NCBI API key is recommended as it increases rate limits from 3 to 10 requests per second, which is essential for batch processing.

Can I search for genes in specific organisms?

Yes, you can filter searches by organism using common names like 'human' or scientific names like 'Mus musculus' to ensure precise results.

How does the skill handle batch gene lookups?

It includes a dedicated batch lookup script that processes multiple gene symbols or IDs simultaneously while automatically managing API rate limits.

NCBI Gene Database Explorer

Name: NCBI Gene Database Explorer
Author: K-Dense-AI

byK-Dense-AI

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2,188

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Data Science & ML

Integrates NCBI Gene data access into Claude for querying sequences, functional annotations, and genomic metadata.

This skill empowers Claude to interact directly with the NCBI Gene database, providing a robust interface for retrieving high-fidelity genomic information including nomenclature, reference sequences (RefSeqs), chromosomal maps, and functional pathways. By leveraging both the traditional E-utilities and the modern NCBI Datasets API, it enables researchers and bioinformaticians to perform complex biological queries, automate batch gene lookups, and extract structured metadata for scientific research, annotation pipelines, and data analysis directly within their coding environment.

Key Features

01Retrieve detailed metadata including RefSeqs, GO terms, and phenotype associations

02Cross-reference gene identifiers across diverse species and genomic resources

032,188 GitHub stars

04Support for multiple formats including JSON, XML, GenBank, and FASTA

05Search genes by symbol, name, chromosomal location, or biological context

06Automate high-throughput batch gene lookups with built-in rate limiting

Use Cases

01Automating gene annotation and metadata extraction for bioinformatics pipelines

02Retrieving transcript and protein sequences for specific genetic variants or pathways

03Validating and cross-referencing large gene lists for differential expression studies

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add k-dense-ai/claude-scientific-skills gene-database

For use in Claude.ai and ChatGPT

Download Skill