Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics.

Abstract

The Cancer Genome Atlas (TCGA) has catalyzed systematic characterization of diverse genomic alterations underlying human cancers. At this historic junction marking the completion of genomic characterization of over 11,000 tumors from 33 cancer types, we present our current understanding of the molecular processes governing oncogenesis. We illustrate our insights into cancer through synthesis of the findings of the TCGA PanCancer Atlas project on three facets of oncogenesis: (1) somatic driver mutations, germline pathogenic variants, and their interactions in the tumor; (2) the influence of the tumor genome and epigenome on transcriptome and proteome; and (3) the relationship between tumor and the microenvironment, including implications for drugs targeting driver events and immunotherapies. These results will anchor future characterization of rare and common tumor types, primary and relapsed tumors, and cancers across ancestry groups and will guide the deployment of clinical genomic sequencing.

• Authors: Li Ding, Matthew H Bailey, Eduard Porta-Pardo, Vesteinn Thorsson, Antonio Colaprico, Denis Bertrand, David L Gibbs, Amila Weerasinghe, Kuan-Lin Huang, Collin Tokheim, Isidro Cortés-Ciriano, Reyka Jayasinghe, Feng Chen, Lihua Yu, Sam Sun, Catharina Olsen, Jaegil Kim, Alison M Taylor, Andrew D Cherniack, Rehan Akbani, Chayaporn Suphavilai, Niranjan Nagarajan, Joshua M Stuart, Gordon B Mills, Matthew A Wyczalkowski, Benjamin G Vincent, Carolyn M Hutter, Jean Claude Zenklusen, Katherine A Hoadley, Michael C Wendl, Llya Shmulevich, Alexander J Lazar, David A Wheeler, Gad Getz, Cancer Genome Atlas Research Network
• Journal: Cell (Cell) Vol. 173 Issue 2 Pg. 305-320.e10 (04 05 2018) ISSN: 1097-4172 [Electronic] United States
• PMID: 29625049 (Publication Type: Journal Article, Research Support, N.I.H., Extramural)
• Copyright: Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved.

Topics

• Carcinogenesis (genetics)
• DNA Repair (genetics)
• Databases, Genetic
• Genes, Neoplasm
• Genomics
• Humans
• Metabolic Networks and Pathways (genetics)
• Microsatellite Instability
• Mutation
• Neoplasms (genetics, immunology, pathology)
• Transcriptome
• Tumor Microenvironment (genetics)