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cBioPortal for Cancer Genomics
cBioPortal lets you browse the mutations, copy number, and expression of tens of thousands of tumours without writing code.
Overview
cBioPortal for Cancer Genomics offers interactive exploration of more than 300 cancer genomics studies, including TCGA, MSK-IMPACT and AACR Project GENIE, so that a reader can browse mutations, copy number and expression across tens of thousands of tumours without writing code. Views include OncoPrints, survival plots, co-occurrence and pathway summaries, and an API supports programmatic access. The software is open source under the AGPL, with each study's data under its own terms, and it is maintained by MSK, Dana-Farber, Princess Margaret, Children's Hospital of Philadelphia and others. On OnCo it is linked to the technologies Comprehensive genomic profiling and Whole-exome and whole-genome sequencing, and cited by the bottlenecks Tumour heterogeneity and clonal evolution and Data silos.
Holds
Interactive exploration of >300 cancer genomics studies including TCGA, MSK-IMPACT, GENIE.
Licence
Open source (AGPL); data per study
Maintainer
MSK, Dana-Farber, Princess Margaret, Children's Hospital of Philadelphia and others
Dataset registry
Size: More than 300 cancer genomics studies
Access: open
Consent and reuse: Per-study; public studies are de-identified.
All datasets and the models trained on them →Similar pages
- CollectionAACR Project GENIE
Shares OncoTree cancer classification, A global rapid tissue donation network for metastatic disease, Let patients themselves donate their records and samples for ultra-rare cancers, An organotropism atlas that predicts where a cancer will spread.
- CollectionOncoKB
Shares Every tumour genomic report machine-readable and deposited nationally, Cancer variant knowledgebases and molecular tumour boards, Pool every immunotherapy trial's biomarker data into one commons, Clinical NGS bioinformatics and variant interpretation.
- IdeaBank three spatially separate tumour blocks from every resection
Shares Tumour heterogeneity and clonal evolution, Data silos, Whole-exome & whole-genome sequencing, Comprehensive genomic profiling.
- IdeaBroad research consent as a routine step of the cancer pathway
Shares Princess Margaret Cancer Centre, Data silos, Memorial Sloan Kettering Cancer Center.
- IdeaLink every national cancer registry to tumour genomics
Shares Every tumour genomic report machine-readable and deposited nationally, Data silos, Whole-exome & whole-genome sequencing.
- CompanyCaris Life Sciences
Shares Every tumour genomic report machine-readable and deposited nationally, Whole-exome & whole-genome sequencing, Comprehensive genomic profiling.
- IdeaPool every multi-sample tumour genome into one open evolution atlas
Shares Tumour heterogeneity and clonal evolution, Data silos, Whole-exome & whole-genome sequencing.
- InstitutionOntario Institute for Cancer Research
Shares Princess Margaret Cancer Centre, Tumour heterogeneity and clonal evolution, Data silos, Whole-exome & whole-genome sequencing.
technologies
institutions
terms
ideas
A global rapid tissue donation network for metastatic diseaseAn organotropism atlas that predicts where a cancer will spreadBank yearly blood from cancer survivors so future tests can be validatedEvery tumour genomic report machine-readable and deposited nationallyLet patients themselves donate their records and samples for ultra-rare cancersPool every immunotherapy trial's biomarker data into one commons
bottlenecks
Open-source projects
All open source in oncology →Open-source projects that are the code behind this collection or publish it, from OnCo's own catalogue: licence and last activity as the repository reported them on the day of the fetch. Listing is not endorsement; check the licence before reuse and the validation before clinical use.
The open platform for exploring multidimensional cancer genomics data, hosting TCGA, GENIE and hundreds of studies and installed at cancer centres worldwide.
The React front end of cBioPortal: OncoPrints, mutation mappers, survival plots and cohort comparison.