TCGA Pancreatic Adenocarcinoma (Firehose Legacy)

Overview

The TCGA Pancreatic Adenocarcinoma dataset (cBioPortal study ID: paad_tcga, also referred to as TCGA-Firehose Legacy) is the landmark multi-platform genomic characterization of pancreatic ductal adenocarcinoma (PDAC) generated by The Cancer Genome Atlas consortium. It encompasses whole-exome sequencing, copy number profiling, RNA-seq, methylation, and proteomic assays applied to 148 patients with resectable or locally advanced PDAC. The reference genome is hg19.

Composition

  • Cancer type: Pancreatic Adenocarcinoma (OncoTree: PAAD)
  • Sample count: 148 patients (somatic tumor/normal pairs with matched genomic and clinical data)
  • Key clinical fields: tumor stage, histological grade, treatment history, overall survival
  • Assays: Whole-exome sequencing (WES), RNA-seq, SNP-array copy number, DNA methylation (Illumina 450k), RPPA proteomics

Assays / panels (linked)

  • Whole-exome sequencing
  • Bulk RNA-seq
  • Copy number (SNP array)

Papers using this cohort

  • PMID:39214094 — used as part of a pooled 950-patient external validation cohort (alongside paad_icgc and the Sausen resectable cohort) to confirm allele-specific survival differences by KRAS mutation in resected PDAC; contributed n=148 patients, with 855 patients having matched genomic and survival data across the full pool PMID:39214094.

Notable findings derived from this cohort

  • In multivariate survival analysis of the pooled external validation cohort (n=855, of which paad_tcga contributed 148 cases), KRASG12R (HR 0.77 [0.60–0.99], p=0.038) and KRASG12V (HR 0.71 [0.58–0.88], p=0.02) were independently associated with improved overall survival relative to KRASG12D PMID:39214094.
  • KRASG12D median overall survival in the pooled external cohort was 15.6 months versus 20.8 months for KRASG12R, 22.4 months for KRASG12V, and 27 months for KRAS wild-type (p=0.006) PMID:39214094.

Sources

  • cBioPortal study: paad_tcga
  • TCGA PAAD publication: Cell 2017 (PMID: 28810144)

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