Analyze Data

Analyze Data

The GDC provides user-friendly and interactive Data Analysis, Visualization, and Exploration (DAVE) Tools supporting gene and variant level analysis that allows researchers to:

  • Visualize most frequently mutated genes and view most frequent somatic mutations for a project
  • Plot all cases for a project in an OncoGrid and visualize the top 50 mutated genes affected by high impact mutations
  • Perform a survival analysis for cases with a mutated form of a certain gene and cases without the mutation
  • Visualize mutations and their frequency across cases mapped to a graphical visualization of protein-coding regions using an interactive Protein Viewer
  • View the cancer distribution as evidenced by the number of cases affected by the mutation across all projects
  • Build cohorts and perform gene and variant level analysis on the cohort
  • Compare custom gene or case sets by visualizing set similarities and differences

Get Started by Exploring GDC Data Analysis Processes and Tools »

Illustration: Analyze Data

Documentation

GDC Data Portal User's Guide »

Data Analysis Tools

The GDC provides interactive tools supporting data analysis, exploration, and visualization.

Data Analysis Policy

The GDC provides policies for publishing the results of analyzed data.

Data Harmonization and Generation

GDC variant calling pipelines generate high level data for analysis. Variant calling pipelines are implemented using data processing software and algorithms selected in consultation with the expert genomics community.

What’s New with GDC and Cancer Research

Cancer Research Highlights and Publications:

From GDC FAQ

Can I use the GDC Application Programming Interface (API) to retrieve data sets associated with visualizations?

Yes. The GDC provides additional analysis endpoints to retrieve data sets associated with visualizations. Analysis endpoints include: survival, top_cases_counts_by_genes, top_mutated_genes_by_project, top_mutated_cases_by_gene, top_mutated_cases_by_ssm, and mutated_cases_count_by_project.

Please refer to the GDC API User's Guide Analysis Section for additional information.

Need Assistance?

Need help with data retrieval, download, or submission?

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