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Principal Investigator: Ethan Cerami
Organization: SLOAN-KETTERING INST CAN RESEARCH
Fiscal Year: 2024
Award: $1,447,287
Funding agency: National Cancer Institute
PROJECT SUMMARY
Genomic sequencing of tumor samples is now a routine component of cancer care, providing unprecedented
insight into cancer initiation, progression, and treatment effects. Additionally, novel molecular profiling and
imaging techniques are gaining traction, generating ever more data. Ensuring that these data sets are easily
accessible and interpretable to scientists and clinicians is of vital importance. Towards this end, we seek to
evolve and expand the capabilities of the cBioPortal for Cancer Genomics, a unique platform that enables
interactive exploratory analysis of large-scale cancer genomic data. The cBioPortal is the most widely used
and most highly cited tool within the cancer genomics community. The public site, with data from 325 cancer
studies, is accessed by >34,000 unique users each month. The cBioPortal instance that supports AACR
Project GENIE, a multi-institutional data sharing initiative, now hosts genomic profiles from >120,000 tumors.
Since the software is available under an open source license, >65 cancer centers and pharmaceutical
companies have institutional installations of cBioPortal to analyze their own data. Multiple institutions are
making contributions to the software, including the five that are part of this application (Memorial Sloan
Kettering Cancer Center, Dana-Farber Cancer Institute, Harvard Medical School, Princess Margaret Cancer
Centre, and Children’s Hospital of Philadelphia). To ensure that this vital resource continues to aid the cancer
research community and to keep pace with the rapidly advancing fields of cancer genomics and precision
cancer medicine, including the continuing increase in the number of profiled tumor samples, we propose to
actively sustain and evolve the cBioPortal platform. Specifically, we plan to make improvements across the
entire cBioPortal software architecture (Aim 1); this includes significant changes to address key performance
bottlenecks, a new API capable of supporting federated queries, a new App Store, and improvements to our
cloud infrastructure and data pipelines. We will also support several new molecular data types, add two entirely
new cBioPortal views, develop new features for precision oncology, and improve general usability (Aim 2). We
propose to continue funding a group of core developers across five institutions, expand the base of code
contributors, and continue to collaborate with The Hyve to support biotech and pharmaceutical companies (Aim
3). Finally, to maximize use in the scientific community, we plan to continue to improve community outreach,
user support, and training (Aim 4). These improvements will be necessary to ensure that cBioPortal continues
to provide an essential service for cancer research and development of new biomarkers and drugs, especially
as more cancer centers are using the cBioPortal as part of their precision medicine programs, and as
pharmaceutical companies are using it for internal research. We expect that, over the next few years, the
cBioPortal will continue to have a strong impact on all areas of cancer research and patient care.
Terms: <AACR><Acceleration><Address><American Association of Cancer Research><Architecture><Area><Assay><Big Data><BigData><Bioassay><Biological Assay><Biological Markers><Biotech><Biotechnology><Cancer Center><Cancer Patient><Cancers><Children's Hospital><Clinical><Cloud Computing><Cloud Infrastructure><Code><Coding System><Collaborations><Communities><Community Outreach><Computer software><Consultations><DF/HCC><Dana-Farber Cancer Institute><Data><Data Analyses><Data Analysis><Data Set><Development><Development and Research><Drugs><Ecologic Systems><Ecological Systems><Ecosystem><Education and Outreach><Engineering / Architecture><Ensure><Funding><Future><GENIE><Generalized Growth><Genes><Genomics><Growth><Imaging Procedures><Imaging Technics><Imaging Techniques><Institution><Instruction and Outreach><Internet><Investigators><Licensing><MSKCC><Malignant Neoplasms><Malignant Tumor><Medication><Memorial Sloan-Kettering Cancer Center><Molecular><Molecular Fingerprinting><Molecular Profiling><Patient Care><Patient Care Delivery><Pediatric Hospitals><Performance><Pharmaceutical Agent><Pharmaceutical Preparations><Pharmaceuticals><Pharmacologic Substance><Pharmacological Substance><Philadelphia><Publishing><R & D><R&D><Research><Research Personnel><Research Resources><Researchers><Resources><Sampling><Scientist><Series><Services><Site><Software><Technology><Tissue Growth><Traction><Training><Training and Outreach><Tutoring and Outreach><Variant><Variation><Visualization><WWW><anti-cancer research><base><bases><bio-markers><biologic marker><biomarker><cBioPortal><cancer care><cancer genomics><cancer initiation><cancer research><care for patients><care of patients><caring for patients><cloud based computing><cloud computer><complex data><consultation><data interpretation><data mining><data pipeline><data sharing><data visualization><datamining><develop software><developing computer software><developmental><drug/agent><genomic data><genomic data-set><genomic dataset><genomic profiles><hack day><hackathon><hackfest><human genome sequencing><improved><individualized cancer care><individualized oncology><insight><internet portal><internet resource><interoperability><large data sets><large datasets><malignancy><medical college><medical schools><molecular imaging><molecular profile><molecular signature><molecule imaging><neoplasm/cancer><novel><on-line compendium><on-line portal><on-line resource><oncogenomics><online compendium><online portal><online resource><ontogeny><open source><outreach><personalization of treatment><personalized medicine><personalized oncology><personalized therapy><personalized treatment><pharmaceutical><precision cancer care><precision cancer medicine><precision medicine><precision oncology><precision-based medicine><programs><research and development><school of medicine><social media><software development><technology platform><technology system><tool><treatment effect><tumor><usability><user-friendly><web><web portal><web resource><web-based portal><web-based resource><webinar><world wide web>