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scientific-gdc-portal

Search GDC projects, cases, and somatic mutations via REST API.

3|1|Updated Feb 11, 2026
Search Tags:#cancer-genomics#gene-expression#gdc#somatic-mutations#genomic-data-commons#case-metadata
One-click install
npx skills add https://github.com/nahisaho/satori --skill scientific-gdc-portal
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: scientific-gdc-portal
Source: https://github.com/nahisaho/satori/tree/main/src/.github/skills/scientific-gdc-portal
Command: npx skills add https://github.com/nahisaho/satori --skill scientific-gdc-portal

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Provides a GDC portal to perform cross-project searches and retrieve case metadata, somatic mutations, gene expression, and file metadata using the GDC REST API.

Core Features & Use Cases

  • Cross-project cancer genomics search across TCGA/TARGET cohorts.
  • Retrieve case metadata and disease-specific statistics.
  • Query somatic mutations (SSM) by gene and obtain gene expression data, plus file metadata for downloads.

Quick Start

Run the GDC portal to fetch summarized projects, cases, and SSM data for a given gene across cancer datasets.

Frequently Asked Questions about scientific-gdc-portal

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

FAQPage Schema
How do I search cancer genomics data across multiple TCGA and TARGET projects?▼

You can search cancer genomics data across multiple TCGA and TARGET projects by querying the GDC REST API with cross-project filters to retrieve summarized project data and disease-specific statistics.

How do I retrieve case metadata and somatic mutations for a specific gene from the GDC?▼

To retrieve case metadata and somatic mutations, query the GDC REST API endpoints for cases and SSMs using gene-level filters, which returns structured case-level metadata and somatic mutation data.

Can I access gene expression data and file metadata for downloads through the GDC API?▼

Yes, you can access gene expression data and file metadata for downloads by querying the GDC REST API endpoints, which provide structured file metadata ready for downstream analysis.

What is the best way to extract pan-cancer project summaries and case-level disease statistics?▼

The best way to extract pan-cancer project summaries and case-level disease statistics is to perform cross-project searches using the GDC REST API with appropriate filters for projects and cases.

Does this GDC API search approach work for cross-project pan-cancer somatic mutation queries?▼

Yes, querying the GDC REST API supports cross-project pan-cancer somatic mutation searches by applying gene-level SSM filters across multiple cancer datasets to retrieve structured genomic results.

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