Does this skill require an NCBI API key?

While optional, using a free NCBI API key is highly recommended to increase rate limits from 3 to 10 requests per second for more efficient data retrieval.

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

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

Can I perform batch lookups for multiple genes?

Yes, the skill includes a dedicated batch lookup workflow designed to handle multiple gene symbols or IDs simultaneously while automatically managing rate limits.

What data formats are supported by this skill?

You can retrieve gene data in multiple formats including JSON for programmatic use, XML for hierarchical metadata, and FASTA or GenBank for sequence analysis.

Gene Database

Name: Gene Database
Author: pur3v4d3r

bypur3v4d3r

•

数据科学与机器学习

Queries the NCBI Gene database to retrieve comprehensive genomic information, including sequences, annotations, and functional data.

The Gene Database skill integrates Claude with NCBI's E-utilities and Datasets APIs, enabling seamless retrieval of genomic data directly within your development or research workflow. It allows users to search for genes by symbol, name, or ID to fetch detailed reference sequences (RefSeqs), map chromosomal locations, and explore Gene Ontology (GO) annotations or phenotypes. Designed for bioinformatics and clinical research, this skill handles the complexities of NCBI's APIs, including rate limiting, batch processing for large datasets, and multi-format data parsing (JSON, XML, FASTA) to support gene annotation and functional analysis pipelines.

主要功能

01Dual API support for NCBI E-utilities and the modern Datasets API

02Automated batch lookup for processing multiple gene identifiers efficiently

03Biological context searching by phenotype, disease, or chromosome location

04Standardized error handling and rate limit management for NCBI services

051 GitHub stars

06Comprehensive metadata retrieval including RefSeqs, GO terms, and pathways

使用场景

01Automating gene annotation for bioinformatics data pipelines

02Cross-referencing gene symbols with official NCBI IDs and aliases

03Fetching reference sequences and mapping data for genomic analysis

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add pur3v4d3r/pur3-pkb-codebase gene-database

For use in Claude.ai and ChatGPT

Download Skill