skills.rest
swaruplab
swaruplabCOMMUNITY
Explore all skills by this author →
WebsiteGitHub

cbioportal-database

Fetch cancer genomics data from cBioPortal REST endpoints.

94|11|Updated Mar 26, 2026
Search Tags:#mutations#rest-api#cancer-genomics#survival-analysis#clinical-data#cbioportal#cnas
One-click install
npx skills add https://github.com/swaruplab/operon --skill cbioportal-database-swaruplab
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: cbioportal-database
Source: https://github.com/swaruplab/operon/tree/main/src-tauri/protocols/cbioportal-database
Command: npx skills add https://github.com/swaruplab/operon --skill cbioportal-database-swaruplab

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

Researchers often need programmatic access to diverse cancer genomics data across studies. cBioPortal provides a unified REST API, enabling programmatic retrieval of mutations, copy-number alterations, expression data, and clinical attributes for comprehensive analyses.

Core Features & Use Cases

  • REST API access: Explore studies, molecular profiles, and fetch mutations, CNAs, and clinical data.
  • Mutations & CNA analysis: Retrieve somatic mutations and copy-number alterations to study mutational landscapes and genomic drivers.
  • Clinical correlations: Link genomic alterations to survival, stage, and other clinical variables for translational insights.
  • Use Case: Compare TP53 mutation frequency and CNA status across TCGA studies to identify oncogenic patterns.

Quick Start

Fetch TP53 mutations in brca_tcga and retrieve associated CNA, expression, and clinical data for integrated analysis.

Frequently Asked Questions about cbioportal-database

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

FAQPage Schema
How do I query cancer genomics data from cBioPortal using a REST API?▼

You can query cancer genomics data by accessing cBioPortal REST endpoints to retrieve mutations, copy-number alterations, expression profiles, and clinical attributes across studies like TCGA and GENIE without an API key.

Can I retrieve TP53 mutations and clinical data from TCGA studies programmatically?▼

Yes, you can fetch TP53 mutations from brca_tcga and retrieve associated CNA, expression, and clinical data programmatically. The REST API enables linking genomic alterations to survival and clinical variables for translational insights.

Do I need an API key to access public cancer genomics data on cBioPortal?▼

No, an API key is not required for public cancer genomics data on cBioPortal. You can access REST endpoints for studies, molecular profiles, mutations, CNA fetch, and clinical data without authentication.

What types of molecular profiles can I fetch using the cBioPortal REST API?▼

The cBioPortal REST API allows you to fetch somatic mutations, copy-number alterations, and expression profiles. These molecular profiles enable studying mutational landscapes and identifying genomic drivers across cancer studies.

How do I compare mutation frequency and CNA status across different cancer studies?▼

Fetch somatic mutations and copy-number alterations via REST endpoints across multiple TCGA studies to compare mutation frequency and CNA status. This approach helps identify oncogenic patterns and genomic driver landscapes.

Related Skills

Explore More Data & Analytics Skills→
Hung-3008Hung-3008
1

cbioportal-database

Query the cBioPortal REST API for cancer genomics mutations, CNAs, and expression data.

Community
Intermediate
OwnLabAIOwnLabAI
21

cbioportal-database

Fetch cancer genomics data from the cBioPortal REST API for studies and genes.

Official
Advanced
hxk622hxk622
8

cosmic-database

Query and download somatic mutation data from the COSMIC database.

Community
Intermediate
qinyan-aiqinyan-ai
48

cbioportal-database

Access cancer genomics data via the cBioPortal REST API.

Community
Advanced