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A canonical case is comprised of the following:

  • A single, frozen, solid, primary, untreated tumor and single normal sample, with no other samples distributed. This is the vast majority of cases in TCGA.
    • For liquid tumors, a single tumor sample and single normal sample, with no other samples distributed.
    • For melanoma cases, a single, untreated, frozen, primary or metastatic tumor sample and a single normal sample.
  • Analytes distributed for the following core characterizations:
    • Whole exome DNA sequence analysis
    • SNP 6.0 DNA microarray analysis
    • DNA methylation analysis
    • mRNA expression analysis by microarray or RNASeq
    • miRNA expression analysis by miRNASeq

Notes:

  • DNA low-pass sequence analysis is neither necessary nor sufficient to count toward being canonical.
  • The location of DNA isolation (BCR or TSS) for normal blood has no effect on being canonical.
  • Cases comprised of only fixed-formalin paraffin embedded (FFPE) samples are not considered canonical for the purposes of TCGA.
  • "Canonical" status is not necessarily permanent. If additional samples (e.g. a metastasis) are added to the case and analytes from them are shipped, the case would be promoted to "Canonical-Plus."

Examples:

  • 1 primary frozen untreated tumor sample AND 1 germline blood normal
  • 1 primary frozen untreated tumor sample AND 1 untreated solid tissue-derived normal

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