NCBI Gene Database Tools

概要

This skill empowers Claude to interact directly with NCBI's comprehensive genomic resources, providing specialized tools for searching gene nomenclature, chromosomal maps, biological pathways, and phenotypes. It streamlines complex bioinformatics workflows by wrapping NCBI’s E-utilities and Datasets APIs into optimized scripts for gene searching, detailed metadata retrieval, and high-throughput batch lookups. Whether you are performing functional analysis, validating gene lists, or extracting RefSeqs, this skill provides the necessary patterns for reliable and rate-limited genomic data access.

主な機能

• Advanced gene searching via E-utilities with complex filtering for symbols, organisms, and diseases.
• Streamlined metadata and sequence retrieval using the modern NCBI Datasets API.
• Efficient batch lookup processing with automated rate limiting and API key support.
• Multi-format output support including JSON, XML, GenBank, and FASTA for diverse analysis pipelines.
• Integrated access to Gene Ontology (GO) annotations, phenotypic data, and chromosomal mapping.
• 16 GitHub stars

ユースケース

• Automating gene annotation and metadata extraction for bioinformatics research pipelines.
• Validating and cross-referencing large lists of gene identifiers across multiple organisms.
• Identifying gene sets associated with specific biological contexts, pathways, or disease phenotypes.