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gtex-database

Query GTEx REST API v2 for tissue-specific gene expression, eQTLs, and sQTLs.

Updated Mar 10, 2026
Search Tags:#genomics#genetics#gwas#gene expression#eqtl#gtex#tissue-specific
One-click install
npx skills add https://github.com/felixboehm/biochem-allergy --skill gtex-database-felixboehm
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gtex-database
Source: https://github.com/felixboehm/biochem-allergy/tree/main/.claude/skills/gtex-database
Command: npx skills add https://github.com/felixboehm/biochem-allergy --skill gtex-database-felixboehm

SYSTEM DOCUMENTATION & REQUIREMENTS

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

What problem does it solve?

This Skill provides access to the Genotype-Tissue Expression (GTEx) database, enabling users to query tissue-specific gene expression levels, expression quantitative trait loci (eQTLs), and splicing quantitative trait loci (sQTLs). This is crucial for understanding the genetic regulation of gene expression across different human tissues.

Core Features & Use Cases

  • Tissue-Specific Gene Expression: Retrieve median gene expression (TPM) for a given gene across 54 human tissues.
  • eQTL and sQTL Lookup: Find genetic variants associated with changes in gene expression or splicing in specific tissues.
  • GWAS Variant Interpretation: Link non-coding genetic variants from Genome-Wide Association Studies (GWAS) to potential target genes and their regulatory mechanisms in relevant tissues.
  • Use Case: A researcher investigating a GWAS hit in brain tissue can use this Skill to find eQTLs for nearby genes in brain tissues, helping to identify the causal gene and understand its regulation.

Quick Start

Use the gtex-database skill to find the median expression of the gene APOE across all tissues.

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 for a gene across human tissues?▼

To find tissue-specific gene expression, query the GTEx portal via its REST API v2 to retrieve median gene expression (TPM) for a target gene across 54 human tissues. This Skill automates that lookup for genomic expression analysis.

How does eQTL lookup help interpret GWAS variants?▼

eQTL lookup helps interpret GWAS variants by linking non-coding genetic variants to potential target genes and their regulatory mechanisms. This pinpoints causal genes by showing variant effects on gene expression in relevant tissues.

Can I use Python and pandas to retrieve gene expression and eQTLs from the GTEx portal?▼

Yes, you can use Python and pandas to retrieve gene expression and eQTLs from the GTEx portal. This Skill utilizes requests for API queries and pandas for structuring the returned tissue-specific genomic data.

What is the best way to link a GWAS hit in brain tissue to a causal gene?▼

The best way to link a GWAS hit in brain tissue to a causal gene is querying GTEx for eQTLs of nearby genes in brain tissues. This reveals genetic variants associated with changes in gene expression specific to that tissue.

Does this GTEx query Skill support splicing quantitative trait loci (sQTLs) analysis?▼

Yes, this GTEx query Skill supports splicing quantitative trait loci (sQTLs) analysis. It queries the GTEx REST API v2 to find genetic variants associated with changes in gene splicing across 54 specific human tissues.

When do I need GTEx tissue-specific expression data for variant effect prediction?▼

You need GTEx tissue-specific expression data for variant effect prediction when investigating non-coding GWAS hits. It links variants to gene regulation across 54 tissues, supporting colocalization studies and identifying causal regulatory mechanisms.

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