Can I convert GRCh37 coordinates to GRCh38?

Yes, the skill provides specific patterns for assembly mapping and instructions on using the correct REST server (grch37.rest.ensembl.org) for legacy assemblies.

How does it handle API rate limits?

The skill includes implementation patterns for respecting Ensembl's 15 requests-per-second limit, handling 429 status codes, and using batch endpoints to minimize overhead.

Can I use this for human and non-human species?

Absolutely. The skill supports over 250 species, including human (homo_sapiens), mouse, zebrafish, fruit fly, and more.

Does this skill support the latest Ensembl release?

Yes, the skill is designed to work with the current Ensembl REST API (release 115 as of September 2025) and provides guidance on handling assembly-specific queries.

Ensembl Genome Database Integration

Name: Ensembl Genome Database Integration
Author: K-Dense-AI

byK-Dense-AI

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2,188

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Ciencia de Datos y ML

Accesses and analyzes the Ensembl REST API for gene lookups, sequence retrieval, and advanced variant effect predictions in genomic research.

This skill empowers Claude to interact directly with the Ensembl genome database, a premier resource for vertebrate genomic data maintained by EMBL-EBI. It simplifies complex bioinformatics tasks such as gene symbol lookups, DNA and protein sequence retrieval, and variant effect predictions (VEP). Whether you are building genomic pipelines, performing comparative evolutionary studies, or mapping coordinates between genome assemblies like GRCh37 and GRCh38, this skill provides the implementation patterns and best practices needed to handle rate limits and batch queries efficiently within a scientific workflow.

Características Principales

01Comprehensive gene lookup by symbol, Ensembl ID, or external cross-references.

02Advanced variant analysis using the Variant Effect Predictor (VEP) and population frequency data.

032,188 GitHub stars

04Cross-species comparative genomics to identify orthologs, paralogs, and gene trees.

05High-speed retrieval of DNA, transcript (cDNA), and protein sequences in multiple formats.

06Genomic coordinate mapping between assembly versions (e.g., GRCh37 to GRCh38).

Casos de Uso

01Investigating evolutionary relationships through homology mapping and genomic region analysis.

02Predicting the functional consequences of genetic variants for clinical and phenotype research.

03Automating gene annotation and protein sequence retrieval for large-scale bioinformatics pipelines.

What are Skills?·How to Install

Install with 🐟 Skill.Fish

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

For use in Claude.ai and ChatGPT

Download Skill