Can I convert coordinates between different genome assemblies?

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

Which species are supported by the Ensembl Database skill?

The skill supports over 250 vertebrate and model organism species, including Human (Homo sapiens), Mouse (Mus musculus), Zebrafish, and Fruit fly.

Does this skill handle Ensembl's REST API rate limits?

The skill documentation provides best practices for handling the 15 requests per second limit, including the use of batch endpoints and 'Retry-After' header logic.

What kind of variant analysis can I perform?

You can look up variants by rsID or coordinates, retrieve population frequency data, and use the Variant Effect Predictor (VEP) to predict functional consequences.

Ensembl Genome Database Integration

Name: Ensembl Genome Database Integration
Author: Yezez9

byYezez9

0•

データサイエンスとML

Accesses and queries the Ensembl REST API to retrieve comprehensive genomic data, sequences, and variant information for over 250 species.

The Ensembl Database skill provides a powerful interface for interacting with the EMBL-EBI Ensembl genome database within Claude. It streamlines genomic research by automating gene information retrieval, sequence extraction (DNA, transcript, and protein), and comparative genomics across species. Researchers can perform complex tasks such as variant effect prediction (VEP), ortholog identification, and coordinate mapping between genome assemblies—such as GRCh37 to GRCh38—directly through automated scripts and natural language commands, making it an essential tool for bioinformatics workflows.

主な機能

01Gene information retrieval by symbol, ID, or external database identifiers

02Variant analysis and functional consequence prediction using VEP

03Comparative genomics tools for finding orthologs and paralogs

040 GitHub stars

05Assembly mapping for coordinate conversion between genome versions

06Multi-format sequence retrieval for DNA, transcripts, and proteins

ユースケース

01Developing automated gene annotation and characterization pipelines

02Performing cross-species comparative genomic studies

03Analyzing genetic variants for clinical or evolutionary research

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent ensembl-database

For use in Claude.ai and ChatGPT

主な機能

01Gene information retrieval by symbol, ID, or external database identifiers

02Variant analysis and functional consequence prediction using VEP

03Comparative genomics tools for finding orthologs and paralogs

040 GitHub stars

05Assembly mapping for coordinate conversion between genome versions

06Multi-format sequence retrieval for DNA, transcripts, and proteins

ユースケース

01Developing automated gene annotation and characterization pipelines

02Performing cross-species comparative genomic studies

03Analyzing genetic variants for clinical or evolutionary research

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent ensembl-database

For use in Claude.ai and ChatGPT