skills.rest
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gtex-database

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

Updated Mar 10, 2026
Search Tags:#genomics#gwas#gene expression#eqtl#gtex#sqtl#tissue-specific
One-click install
npx skills add https://github.com/Yezez9/Research-Agent --skill gtex-database
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gtex-database
Source: https://github.com/Yezez9/Research-Agent/tree/main/scientific-skills/gtex-database
Command: npx skills add https://github.com/Yezez9/Research-Agent --skill gtex-database

SYSTEM DOCUMENTATION & REQUIREMENTS

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

What problem does it solve?

This Skill allows researchers to query the Genotype-Tissue Expression (GTEx) portal to understand how genetic variations influence gene expression across different human tissues, crucial for interpreting disease-associated genetic loci.

Core Features & Use Cases

  • Tissue-Specific Gene Expression: Retrieve normalized gene expression levels (TPM) for any gene across 54 human tissues.
  • eQTL and sQTL Lookup: Identify genetic variants (eQTLs) and splicing variants (sQTLs) that significantly affect gene expression or splicing in specific tissues.
  • GWAS Variant Interpretation: Link non-coding genetic variants identified in Genome-Wide Association Studies (GWAS) to potential target genes and regulatory mechanisms.
  • Use Case: Determine if a GWAS variant associated with a particular disease is linked to altered expression of a nearby gene in relevant tissues like brain or liver.

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 link GWAS variants to gene expression across human tissues?▼

To link GWAS variants to gene expression, query the GTEx REST API v2 for eQTL and sQTL associations. This identifies genetic variants significantly affecting gene regulation or splicing across 54 human tissues.

What is tissue-specific gene expression and how is it measured?▼

Tissue-specific gene expression measures RNA levels across different tissue types. This Skill retrieves normalized expression values (TPM) for any gene across 54 human tissues via the GTEx REST API v2.

Can I use Python to query eQTL data for specific genetic variants?▼

Yes, you can query eQTL data using Python. This Skill leverages the requests and pandas libraries to interface with the GTEx REST API v2, retrieving and structuring variant-gene expression associations.

How do I find median gene expression levels for a specific gene like APOE across tissues?▼

To find median expression levels for a gene like APOE, query the GTEx REST API v2 for normalized TPM values across all available tissues. This retrieves tissue-specific expression profiles for any specified gene.

Does this approach support both eQTL and sQTL lookup for interpreting genetic associations?▼

Yes, this approach supports both eQTL and sQTL lookup. It queries the GTEx portal to identify genetic variants affecting gene expression (eQTLs) and splicing variants (sQTLs) to interpret regulatory mechanisms across 54 tissues.

What are the limitations of using GTEx REST API v2 for variant interpretation?▼

Limitations of using the GTEx REST API v2 include reliance on the portal's available data for 54 specific human tissues. Variant interpretation is constrained by the dataset's tissue coverage and available significant eQTL and sQTL associations.

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