Submit Data
How do I register my project with the GDC?
Submitted by Anonymous
on
Once the project has been registered through dbGaP please contact the GDC Helpdesk for assistance with setting up a new project.
Where do I go to report an issue or submit an inquiry about the GDC?
Submitted by Anonymous
on
The GDC provides helpdesk support for data submission and other issues. For information on the GDC helpdesk, please visit GDC Support.
How do I obtain an account to log in to the GDC?
Submitted by Anonymous
on
Generally, browsing indexed GDC metadata (such as information about the cases and files contained in the GDC Data Portal) does not require a login.
eRA Commons authentication and dbGaP authorization are required before accessing controlled data, which generally includes individually identifiable information such as low level genomic sequencing data and germline variants.
Controlled-access data users log in to the GDC using their eRA Commons accounts. The GDC then verifies that the user has authorization in dbGaP to access specific controlled datasets.
How does the GDC generate high level data?
Submitted by Anonymous
on
The GDC generates high level data for germline and somatic genotyping, RNA-Seq quantification and structural analysis, SNP Array Genotyping and CNV Calls, and variant annotations. Please visit GDC Data Harmonization for additional information on the GDC high level data generation pipelines.
What reference genome is the GDC harmonized against?
Submitted by Anonymous
on
The GDC is harmonized against GRCh38. Please see GDC Data Harmonization for additional information on the GDC pipelines for re-aligning genomic data.
What data types and file formats does the GDC support?
Submitted by Anonymous
on
Please visit the GDC Data Types and File Formats for a list of the standard data types supported by the GDC.
How do I submit data into the GDC?
Submitted by Anonymous
on
Information on the data submission processes and tools are available on the GDC Data Submission Processes and Tools page. Detailed instructions for submitting data into the GDC are provided in the GDC Data Submission Portal User's Guide. Per GDC Policy, organizations interested in submitting data into the GDC must first apply for data submitter access through the NIH database of Genotypes and Phenotypes (dbGaP).