Open source software solutions of precision medicine for cancer patients

What is cBioPortal?

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.

Who is using cBioPortal?

The public instance of cBioPortal is now one of the most popular online resources for cancer genomics data and attracts more than 1,500 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 1,100 and 700 times, respectively, since their publication. LabWorm ranked the cBioPortal #4 of the top 15 research tools in 2015. There are more than 30 actively used cBioPortal instances in hospitals, universities, pharmaceutical companies, and other institutes all over the globe. Notable, cBioPortal has been adopted as the analysis and visualization platform by AACR GENIE, an international multi-institutional data-sharing project to catalyze precision oncology.

Who are we?

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.

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Technologies

  • java
  • javascript
  • web
  • html
  • big data

Topics

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cBioPortal for Cancer Genomics 2016 Projects

  • JuexinWang
    Build a web service and auto updating pipeline to provide 3D structure alignments for BioPortal
    cBioPortal provides web resources in cancer genome research. Building a web service to provide protein alignments between ensembl and PDB sequences...
  • rohangoel96
    Improving the clinical timeline of cBioPortal's patient view
    The primary aim of this project is to improve the cBioPortal’s clinical-timeline. The present implementation...
  • pambot
    Integration of Proteomics Data to cBioPortal
    A key step towards the development of effective personalized cancer treatments is the collection of vast stores of patient data on a variety of tumor...
  • Shrumit Mehta
    Onco Query Language (OQL) editor
    cBioPortal allows the analysis and visualization of published cancer genomic datasets. These datasets must be queried by entering symbols of genes of...
  • AndreeaBican
    Prototype Plugin framework for Authentication
    My proposal outlines my project goals. I have detailed my vision about how could the problem be solved. Also, I tried to enhance my strengths. I feel...
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2016