Unlocking the World of TCGA Genomic Data
Explore various tiers of access to TCGA data, ranging from open and non-identifiable data to controlled and identifiable raw sequencing data. Learn about Genome Data Commons and platforms like Firebrowse and cBioPortal for accessing genomic insights. Dive into TCGA Breast Cancer Genomic Data Sites for comprehensive datasets. Stay informed about the latest harmonized data mapped to Hg38. Accessing TCGA data has never been more accessible yet regulated.
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Presentation Transcript
Access Tiers of TCGA data Open Access Non-identifiable data Aggregate data Gene level summaries Controlled Access Identifiable Data Raw sequence data Raw SNP data Any one can download, free to share Must apply for access through dbGaP with eRA Commons account Students/postdocs have access under their PI Data cannot be shared across labs https://gdc.cancer.gov/access-data/data-access-policies https://gdc.cancer.gov/access-data/obtaining-access-controlled-data/registering-and-working-era-commons-and-dbgap
Genome Data Commons https://gdc.cancer.gov New Harmonized Data mapped to Hg38 Different pipelines Than prior TCGA data
Genome Data Commons https://gdc.cancer.gov Prior TCGA data from DCC and CGHub Hg19 aligned data
TCGA Breast Cancer Genomic Data Sites https://tcga-data.nci.nih.gov/docs/publications/brca_2015/ (all open access TCGA Breast Cancer Data) https://lbg.unc.edu/~hoadley/BRCA.817.rsemg.uqnorm.counts.txt (all 20,000 gene expression values) https://lbg.unc.edu/~hoadley/BRCA.817.rsemg.uqnorm.counts.intrinsic.txt (~2000 gene classification list )
