What species are supported by the Ensembl Database skill?

The skill supports over 250 species, including humans, mice, zebrafish, and fruit flies, covering a vast range of vertebrate and model organism genomes.

Can I convert coordinates between different genome assemblies?

Yes, the skill includes capabilities for assembly mapping, allowing you to convert genomic coordinates between versions like GRCh37 (hg19) and GRCh38.

Are there any API rate limits I should be aware of?

The Ensembl REST API typically allows 15 requests per second. The skill documentation provides best practices for handling rate limits and implementing retries.

How does the Variant Effect Predictor (VEP) work within the skill?

You can provide rsIDs or genomic coordinates, and the skill queries the Ensembl VEP to predict functional consequences, population frequencies, and phenotype associations.

Ensembl Genome Database Explorer

Name: Ensembl Genome Database Explorer
Author: Microck

byMicrock

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Ciencia de Datos y ML

Queries the Ensembl REST API to retrieve genomic sequences, gene annotations, and variant analysis for over 250 species.

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The Ensembl Genome Database skill integrates Claude with the premier resource for vertebrate genomics maintained by EMBL-EBI. It empowers users to perform complex bioinformatics tasks including gene symbol lookups, DNA/protein sequence retrieval, and cross-species ortholog mapping. With built-in support for the Variant Effect Predictor (VEP) and coordinate mapping between genome assemblies, this skill is essential for researchers and developers building genomic pipelines or conducting comparative evolutionary studies directly within their AI-assisted workflow.

Características Principales

81 GitHub stars
Gene information retrieval by symbol, Ensembl ID, or cross-reference
Assembly mapping between different genome versions (e.g., GRCh37 to GRCh38)
Variant analysis and consequence prediction using VEP
Comparative genomics for identifying orthologs and paralogs
Comprehensive sequence fetching for DNA, cDNA, and proteins

Casos de Uso

Investigating evolutionary conservation and gene trees across hundreds of species
Automating gene annotation and sequence extraction for bioinformatics pipelines
Predicting the functional impact of genetic variants on protein structure

Acerca de

Características Principales

81 GitHub stars
Gene information retrieval by symbol, Ensembl ID, or cross-reference
Assembly mapping between different genome versions (e.g., GRCh37 to GRCh38)
Variant analysis and consequence prediction using VEP
Comparative genomics for identifying orthologs and paralogs
Comprehensive sequence fetching for DNA, cDNA, and proteins

Casos de Uso

Investigating evolutionary conservation and gene trees across hundreds of species
Automating gene annotation and sequence extraction for bioinformatics pipelines
Predicting the functional impact of genetic variants on protein structure