Publication Date

8-14-2023

Journal

Cancer Cell

DOI

10.1016/j.ccell.2023.06.009

PMID

37582339

PMCID

PMC10506762

PubMedCentral® Posted Date

8-14-2024

PubMedCentral® Full Text Version

Author MSS

Published Open-Access

yes

Keywords

Humans, Proteogenomics, Proteomics, Genomics, Neoplasms, Gene Expression Profiling, pan-cancer, proteogenomics, data harmonization, multi-omics, open data, CPTAC

Abstract

The National Cancer Institute's Clinical Proteomic Tumor Analysis Consortium (CPTAC) investigates tumors from a proteogenomic perspective, creating rich multi-omics datasets connecting genomic aberrations to cancer phenotypes. To facilitate pan-cancer investigations, we have generated harmonized genomic, transcriptomic, proteomic, and clinical data for >1000 tumors in 10 cohorts to create a cohesive and powerful dataset for scientific discovery. We outline efforts by the CPTAC pan-cancer working group in data harmonization, data dissemination, and computational resources for aiding biological discoveries. We also discuss challenges for multi-omics data integration and analysis, specifically the unique challenges of working with both nucleotide sequencing and mass spectrometry proteomics data.

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