| Literature DB >> 32396860 |
Jian Carrot-Zhang1, Nyasha Chambwe2, Jeffrey S Damrauer3, Theo A Knijnenburg2, A Gordon Robertson4, Christina Yau5, Wanding Zhou6, Ashton C Berger7, Kuan-Lin Huang8, Justin Y Newberg9, R Jay Mashl10, Alessandro Romanel11, Rosalyn W Sayaman12, Francesca Demichelis11, Ina Felau13, Garrett M Frampton9, Seunghun Han14, Katherine A Hoadley3, Anab Kemal13, Peter W Laird6, Alexander J Lazar15, Xiuning Le16, Ninad Oak17, Hui Shen6, Christopher K Wong18, Jean C Zenklusen13, Elad Ziv19, Andrew D Cherniack20, Rameen Beroukhim21.
Abstract
We evaluated ancestry effects on mutation rates, DNA methylation, and mRNA and miRNA expression among 10,678 patients across 33 cancer types from The Cancer Genome Atlas. We demonstrated that cancer subtypes and ancestry-related technical artifacts are important confounders that have been insufficiently accounted for. Once accounted for, ancestry-associated differences spanned all molecular features and hundreds of genes. Biologically significant differences were usually tissue specific but not specific to cancer. However, admixture and pathway analyses suggested some of these differences are causally related to cancer. Specific findings included increased FBXW7 mutations in patients of African origin, decreased VHL and PBRM1 mutations in renal cancer patients of African origin, and decreased immune activity in bladder cancer patients of East Asian origin.Entities:
Keywords: TCGA; admixture; ancestry; cancer; eQTL; genomics; mRNA; methylation; miRNA; mutation
Mesh：
Substances：
Year: 2020 PMID： 32396860 PMCID： PMC7328015 DOI： 10.1016/j.ccell.2020.04.012
Source DB: PubMed Journal: Cancer Cell ISSN： 1535-6108 Impact factor: 38.585