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gnomad-database

Query gnomAD for allele frequencies, gene constraint metrics, and variant lists.

269|20|Updated Jun 13, 2026
Search Tags:#bioinformatics#genomics#genetics#variant#allele#gnomad
One-click install
npx skills add https://github.com/NeuroAIHub/BrainPilot --skill gnomad-database-neuroaihub
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: gnomad-database
Source: https://github.com/NeuroAIHub/BrainPilot/tree/main/packages/skills/skills/18_Genetics_Genomics/gnomad-database
Command: npx skills add https://github.com/NeuroAIHub/BrainPilot --skill gnomad-database-neuroaihub

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires polite-http, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This skill addresses the complexity of accessing large-scale genomic datasets by providing a streamlined interface to query the Genome Aggregation Database (gnomAD) for variant frequencies and gene constraint metrics.

Core Features & Use Cases

  • Variant Frequency Analysis: Retrieve global and ancestry-specific allele frequencies, homozygote counts, and filtering allele frequencies (FAF) for specific variants.
  • Gene Constraint Assessment: Obtain pLI and LOEUF scores to evaluate a gene's intolerance to loss-of-function mutations.
  • Genomic Search: Identify all variants within a specific genomic region or associated with a particular gene and consequence type.
  • Use Case: A researcher investigating a rare disease can use this skill to quickly determine if a candidate variant is present in the general population or if the affected gene is highly constrained.

Quick Start

Use the gnomad-database skill to retrieve the variant frequency for the variant 1-55516888-G-GA and save the results to a file named variant_data.json.

Frequently Asked Questions about gnomad-database

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

FAQPage Schema
How do I retrieve allele frequencies from gnomAD for a specific genetic variant?▼

To retrieve allele frequencies from gnomAD, query the database with a specific variant identifier. The tool returns global and ancestry-specific allele frequencies, homozygote counts, and filtering allele frequencies structured as JSON for downstream analysis.

What is gnomAD gene constraint and how do I get pLI and LOEUF scores?▼

gnomAD gene constraint metrics like pLI and LOEUF scores indicate a gene's intolerance to loss-of-function mutations. You can obtain these scores by querying the database to evaluate gene constraint for genomic research and variant interpretation.

Can I search for all genomic variants within a specific gene or region in gnomAD?▼

Yes, you can search for all genomic variants within a specific region or associated with a particular gene. The query supports filtering by consequence type and returns structured JSON lists of variants for population genetics studies.

Does the gnomAD API have rate limits I need to handle for programmatic access?▼

Yes, the gnomAD API enforces rate limits for programmatic access. This skill enforces API rate limits automatically using polite-http dependencies, ensuring compliant queries when retrieving exome and genome data for variant interpretation.

What is the best way to access exome and genome population data for variant interpretation?▼

The best way to access exome and genome population data is through programmatic queries to the Genome Aggregation Database. This provides structured JSON outputs containing allele frequencies and gene constraint metrics for variant interpretation.

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