Analyze Data

There is a variety of target capture kits used by different sequencing centers. Most of the whole exome capture kits share many common genomic regions, especially for cancer related genes; However, which exons are included is totally dependent on the vendor's library preparation kit. There are often more differences among capture regions from different Targeted-Sequencing/Panel data.

The GDC does not perform batch effect corrections across samples for the following reasons:

A recent data release offers new ways to access data from the Count Me In project.

Target capture kits are used to "target" specific regions of a given genome for the Whole Exome Sequencing (WXS) and Targeted Sequencing experimental strategies. Users should therefore take care when comparing data from different target capture kits for the WXS and Targeted Sequencing experimental strategies because of potential differences in genomic regions targeted, variant filtering, and subsequent variants recovered.

The GDC’s Data Release 26 features updates allowing Multiple Myeloma Research Foundation (MMRF) CoMMpass data to be explored directly in the GDC Data Portal.

In a major update to GDC's Data Portal, users can now plot and explore clinical data in the Analysis area.

Users who have been granted access to Foundation Medicine data can now visualize somatic mutations using GDC Data Analysis, Visualization, and Exploration (DAVE) tools.

The GDC released a new version of the GDC Data Portal with new visualization tools for copy number variations (CNVs).

The NCI's Genomic Data Commons (GDC) released new features allowing users to build and compare custom cohorts and perform operations on case, gene, or mutation sets.

The Analyzing Data using GDC Data Analysis, Visualization, and Exploration (DAVE) Tools webinar will help introduce users to GDC tools for analyzing data from cancer genomic studies.