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gtex-database

Query the GTEx REST API v2 for tissue-specific gene expression and eQTL data.

Updated Mar 15, 2026
Search Tags:#genomics#gene expression#variant interpretation#eqtl#gtex#sqtl#tissue-specific
One-click install
npx skills add https://github.com/sagunkayastha/claude_skills_collection --skill gtex-database-sagunkayastha
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gtex-database
Source: https://github.com/sagunkayastha/claude_skills_collection/tree/main/scientific-databases/gtex-database
Command: npx skills add https://github.com/sagunkayastha/claude_skills_collection --skill gtex-database-sagunkayastha

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, pandas, and includes references (resource) components.

What problem does it solve?

This Skill allows users to query the Genotype-Tissue Expression (GTEx) database to understand tissue-specific gene expression, identify expression quantitative trait loci (eQTLs), and analyze splicing quantitative trait loci (sQTLs), crucial for interpreting genetic variants' effects.

Core Features & Use Cases

  • Gene Expression Lookup: Retrieve median gene expression levels across 54 human tissues.
  • eQTL Analysis: Find genetic variants associated with gene expression changes in specific tissues.
  • Variant Interpretation: Link GWAS variants to potential regulatory effects on gene expression.
  • sQTL Analysis: Identify variants affecting gene splicing.
  • Use Case: Given a GWAS variant, identify which genes it regulates in the liver and what the effect direction is.

Quick Start

Find all eQTLs for the gene ENSG00000169174.14 in the liver tissue.

Frequently Asked Questions about gtex-database

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

FAQPage Schema
How do I find tissue-specific gene expression levels for a specific gene across human tissues?▼

You can identify eQTLs by querying the GTEx REST API v2 for genetic variants associated with gene expression changes in specific tissues. This links your GWAS variants to potential regulatory effects and pinpoint their effect direction.

Can I link GWAS variants to regulatory effects on gene expression?▼

Yes, variant interpretation is supported by linking GWAS variants to potential regulatory effects on gene expression. The Skill queries the GTEx REST API v2 to identify variant-gene associations and their tissue-specific regulatory impacts.

What is the difference between eQTL and sQTL analysis in GTEx?▼

eQTL analysis identifies genetic variants associated with gene expression changes, while sQTL analysis identifies variants affecting gene splicing. The Skill queries the GTEx database to retrieve and analyze both regulatory effects across tissues.

Do I need pandas and requests to query the GTEx REST API v2?▼

Yes, querying the GTEx REST API v2 requires the requests and pandas libraries. These dependencies facilitate the HTTP requests to the database and structure the returned gene expression and QTL data for analysis.

What's the best way to retrieve all eQTLs for a specific gene in a target tissue like the liver?▼

Query the GTEx database via its REST API v2 using the specific Ensembl gene ID and target tissue name. This retrieves all genetic variants associated with expression changes for that gene in the liver.

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