Other publicly available data resources

Access levels:
🔒 = requires dataset-specific permissions/access requests
✅ = open access (may require creation of an account)

Data Resource	Short Description	Access Requirements
Public cBioPortal	Cancer variant and gene expression visualizations.	✅
AACR Project GENIE cBioPortal	Project GENIE-only cancer variant and gene expression visualizations (includes many rare cancers)	🔒
AACR Project GENIE (cancer) raw data tables	Project GENIE-only cancer variant and gene expression row-level data tables (includes many rare cancers)	🔒
Catalog of Somatic Mutations in Cancer (COSMIC)	Common variants observed in cancer with functional annotation.	✅
Cancer Target Discovery and Development Data Portal	Wide variety of cancer drug discovery-related datasets.	✅
Open Pediatric Brain Tumor Atlas (OpenPBTA)	Various data types, including gene expression and somatic SNV data, for pediatric brain tumors (see: How to Obtain OpenPBTA Data and data file descriptions)	✅

Data Resource	Short Description	Access Requirements
Orphadata	Rare disease dataset repository managed by Orphanet.	✅ 🔒

Data type specific data sources:

Data Resource	Short Description	Access Requirements	Data Type
Genomic Data Commons	Wide range of human cancer genomic data.	✅ 🔒	genomic and transcriptomic sequencing
Sequence Read Archive	Very wide range of human and non-human sequencing data. Example searches: `(noonan) AND "Homo sapiens"[orgn:__txid9606]` or `desmoid tumor`	✅ 🔒	genomic and transcriptomic sequencing
refine.bio	Processed and harmonized microarray and RNA-seq datasets aggregated from public repositories. Friendly cohort building and download system. Example search	✅	transcriptomic sequencing
OpenNeuro	Neurology imaging datasets.	✅	imaging
GTEx	RNA-seq data from many different “normal” tissues, including skin and tibial nerve that may be useful as a point of comparison	✅ 🔒	genomic and transcriptomic sequencing