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What data types were updated in DR 32 (GENCODE Update Release)?

Submitted by Anonymous on
    RNA-Seq

  • Replaced all RNA-Seq data including: Alignments, Gene Expression (STAR) + New Normalization, Transcript Fusion
  • Removed HTSeq Files
  • Re-harmonized TCGA data to use the newer pipeline
    WXS/Targeted Sequencing

  • Generated and versioned new annotated somatic mutations and Ensemble MAFs
  • Re-harmonized TCGA data to use the newer pipeline (alignments + mutation calls)
    WGS

  • Generated and versioned structural variant and gene level copy number data
    Methylation

  • Re-harmonized TCGA methylation data to use the new SeSAMe pipeline
    scRNA-Seq

  • Generated and versioned CPTAC-3 scRNA-Seq data
    Other

  • Replaced gene level copy number files for TCGA with those harmonized using ASCAT
  • Replaced somatic mutation files for FM-AD and transitioned to aliquot-level MAFs
  • Replaced all GENIE files
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GENCODE Update