Browse Data from Rare Cancers in the Data Portal
A recent data release offers new ways to access data from the Count Me In project.
Analyze Data
What considerations should be taken when comparing samples with different target capture kits?
Submitted by Anonymous
on
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.
Explore MMRF Mutations in the Data Portal
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.
New Clinical Data Analysis Tools, Submission Support & Other Updates
In a major update to GDC's Data Portal, users can now plot and explore clinical data in the Analysis area.
GDC DAVE Tools Support Visualization of Controlled Access Somatic Mutations from Foundation Medicine
Users who have been granted access to Foundation Medicine data can now visualize somatic mutations using GDC Data Analysis, Visualization, and Exploration (DAVE) tools.
Visualize Copy Number Alterations in the GDC Data Portal
The GDC released a new version of the GDC Data Portal with new visualization tools for copy number variations (CNVs).
The NCI GDC Releases New Cohort Comparison Features
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.
GDC Webinar: Analyzing Data using GDC Data Analysis, Visualization, and Exploration (DAVE) Tools
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.
Why is the mutation frequency value higher (more mutations) in the OncoGrid than the # of Mutations listed on other pages for the same gene?
Submitted by Anonymous
on
Mutation frequency in the context of the OncoGrid represents total mutation occurrences in the gene (total count), while the # of Mutations listed on other portions of the GDC Portal represents the number of unique mutations on a gene or within a particular cohort.
Why are there fewer cases in the 'Top Mutated Cancer Genes in Selected Projects' bar graph on the Project List Page, than there are affected cases listed on each project page?
Submitted by Anonymous
on
There are less cases displayed with mutations in the 'Top Mutated Cancer Genes in Selected Projects' on the Project List Page because there is a filter on cases that have mutations on 1) Genes in the Cancer Gene Census and 2) Mutations with consequence types of {missense_variant, frameshift_variant, start_lost, stop_lost, initiator_codon_variant, stop_gained}.