cBioPortal for Cancer Genomics

Aid discovery in complex cancer genomics data

Technologies
mysql, javascript, java, react, typescript
Topics
genomics, cancer, bioinformatics, big data, precision medicine
Aid discovery in complex cancer genomics data
The cBioPortal for Cancer Genomics is a resource designed to provide broad community access to cancer genomic data. It provides a unique user­-friendly and "biology­-centric computational user interface", with the goal of making genomic data more easily accessible to translational scientists, biologists, and clinicians. The interface was explicitly built and continues to evolve with careful usability studies involving multiple biological and clinical users, and an active and engaged user base. The public instance of cBioPortal (https://cbioportal.org/) is now one of the most popular online resources for cancer genomics data and attracts more than 4,000 unique visitors (cancer researchers and clinicians) per day. The two papers documenting the cBioPortal Cerami et al. Cancer Discov. 2012 & Gao et al. Sci. Signal. 2013 have been cited more than 5,600 and 5,100 times, respectively, since their publication. There are more than 30 actively used cBioPortal instances in hospitals, universities, pharmaceutical companies, and other institutes all over the globe. We are a group of software engineers, bioinformaticians, and cancer biologists building software solutions for precision medicine for cancer patients. Our overall goal is to build infrastructure to support clinical decisions for personalized cancer treatment by utilizing “big data” of cancer genomics and patient clinical profiles. Our multi-institutional team currently has more than 30 active members, primarily from Memorial Sloan Kettering Cancer Center, the Dana-Farber Cancer Institute, Princess Margaret Cancer Centre, Children's Hospital of Philadelphia, and The Hyve, a bioinformatics company from the Netherlands.
2022 Program

Successful Projects

Contributor
Mete Ozguz
Mentor
"Jag" Prasanna Kumar Jagannathan
Organization
cBioPortal for Cancer Genomics
Improve Genome Nexus' Command Line Interface Experience
This will be the Genome Nexus' cli to rule them all. Main objectives: 1. All 3 projects will be merged into one Java project. 2. Interface will...
Contributor
Yusuf Ziya Özgül
Mentor
Onur Sumer, Ugur Dogrusoz
Organization
cBioPortal for Cancer Genomics
Broader use of pathway views in cBioPortal
The goal of this project is to improve the integration of PathwayMapper into cBioPortal as well as enhancing the full-blown, stand-alone editor...