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Lack of detectable neoantigen depletion signals in the untreated cancer genome.

Accepted version
Peer-reviewed

Type

Article

Change log

Authors

Van den Eynden, Jimmy 
Jiménez-Sánchez, Alejandro 
Miller, Martin L 
Larsson, Erik 

Abstract

Somatic mutations can result in the formation of neoantigens, immunogenic peptides that are presented on the tumor cell surface by HLA molecules. These mutations are expected to be under negative selection pressure, but the extent of the resulting neoantigen depletion remains unclear. On the basis of HLA affinity predictions, we annotated the human genome for its translatability to HLA binding peptides and screened for reduced single nucleotide substitution rates in large genomic data sets from untreated cancers. Apparent neoantigen depletion signals become negligible when taking into consideration trinucleotide-based mutational signatures, owing to lack of power or to efficient immune evasion mechanisms that are active early during tumor evolution.

Description

Keywords

Antigens, Neoplasm, Binding Sites, Codon, Databases, Factual, Genome, Human, HLA Antigens, Humans, Mutation, Mutation Rate, Neoplasms, Selection, Genetic, T-Lymphocytes, Cytotoxic

Journal Title

Nat Genet

Conference Name

Journal ISSN

1061-4036
1546-1718

Volume Title

51

Publisher

Springer Science and Business Media LLC

Rights

All rights reserved
Sponsorship
Cancer Research UK (21141)