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lifesciences-genomics

Resolve gene identifiers and annotate variants via Ensembl, NCBI, and HGNC.

Updated Feb 5, 2026
Search Tags:#genomics#ncbi#ensembl#gene-lookup#orthology#variant-annotation
One-click install
npx skills add https://github.com/donbr/lifesciences-deepagents --skill lifesciences-genomics
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: lifesciences-genomics
Source: https://github.com/donbr/lifesciences-deepagents/tree/main/.claude/skills/lifesciences-genomics
Command: npx skills add https://github.com/donbr/lifesciences-deepagents --skill lifesciences-genomics

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Automates reliable gene identifier resolution and variant annotation by querying Ensembl, NCBI, and HGNC, enabling reproducible cross-database results.

Core Features & Use Cases

  • LOCATE: locate genes by symbol or name and map to canonical IDs (HGNC, Ensembl, NCBI).
  • RETRIEVE: fetch full gene metadata, cross-references, and orthology relationships for validation.
  • Cross-database ID resolution and variant annotation (via Ensembl VEP) with curl fallback when MCP tools are unavailable.
  • Use cases include annotating variants, finding orthologs, mapping gene IDs, and performing LD analysis across species.

Quick Start

Locate HGNC/Ensembl IDs for a gene symbol and retrieve full gene metadata.

Frequently Asked Questions about lifesciences-genomics

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I resolve a gene symbol to Ensembl, NCBI, and HGNC identifiers?▼

Gene symbol resolution queries Ensembl, NCBI, and HGNC to map symbols to canonical IDs. It locates genes by name and retrieves full metadata with cross-references for reproducible cross-database validation.

Can I annotate genetic variants using Ensembl VEP when MCP tools are unavailable?▼

Variant annotation via Ensembl VEP works even when MCP tools are unavailable by using a curl fallback. This ensures reliable VEP annotations and provenance tracking under constrained environments.

What is the best way to find orthologs and perform LD analysis across multiple species?▼

Orthology mapping and LD analysis across multiple species are handled by querying Ensembl to retrieve orthology relationships. This fetches full gene metadata and cross-references for validation across databases.

Does gene lookup support cross-database ID resolution for reproducible research?▼

Cross-database ID resolution queries Ensembl, NCBI, and HGNC to provide reproducible results. It returns provenance and cross-reference results in full metadata form for accurate validation.

Are there limitations when using MCP tools for variant annotation and gene lookup?▼

MCP tool limitations are mitigated by a curl fallback mechanism, ensuring continuous variant annotation and gene lookup capabilities even if primary MCP interfaces become unavailable or unresponsive.

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