Fred Hutch cBioPortal

cBioPortal is an open-access, open-source resource for interactive exploration of multidimensional cancer genomics data sets developed by Memorial Sloan Kettering (MSK). The Data Science Lab (DaSL) in conjunction with the Scientific Computing Group (SciComp) at Fred Hutch have integrated a Fred Hutch instance of cBioPortal for research use only.

The Fred Hutch deployment of cBioPortal provides:

• Interim Visualization: The Fred Hutch instance of cBioPortal allows for the visualization of clinical and genomic data both published and unpublished.
• Facilitated Sharing: Hosting your data enables sharing and comparison to other datasets from the Fred Hutch community and beyond.
• Controlled Access: Study data is restricted to authorized personnel approved by the study lead or principal investigator (PI), thus protecting your research data
• Inclusion of Sensitive Data: cBioportal has been reviewed and approved by InfoSec to include up to individually identifiable research data.

Getting Started

Training and Courses

• Find out more about the Fred Hutch instance of cBioPortal and how to upload your study in the DaSL Resource Library.
• Read more the data formats required for upload and explore a selection of tools that will help with this formatting in the Fred Hutch cbioportal-data-formatting repository.
• The creators of cBioPortal at MSK provide a great series of video tutorials that will guide you through how to use the cBioPortal interface.
• Check out the recording below of our Fred Hutch cBioPortal Demo Day demonstrating how to use cBioPortal in general, the benefits of the Fred-Hutch-specific instance, and how to safely and securely upload your own study data. (Note: some of the processes discussed in this video are specific to Fred Hutch and do not apply to all instances of cBioPortal.)

Technical Documentation and Repositories

• Public cBioPortal Documentation
• Fred Hutch cBioPortal GitHub Repository (contact Taylor Firman for access)

Release Notes

September 2024

What’s New

• Fred Hutch cBioPortal deployment with user documentation
• Updated to v5.4.10

Fixes

• No fixes yet, just releasing this product

Contact Us

The cBioPortal team can be contacted by emailing Taylor Firman (tfirman@fredhutch.org). Please feel free to schedule a Data House Call with us to go over any questions you may have.