Abstract:
:Recently proposed tumor fitness measures, based on profiling neoepitopes for reactive viral epitope similarity, have been proposed to predict response to immune checkpoint inhibitors in melanoma and small-cell lung cancer. Here we applied these checkpoint based fitness measures to the matched checkpoint treatment naive Cancer Genome Atlas (TCGA) samples where cytolytic activity (CYT) imparts a known survival benefit. We observed no significant survival predictive power beyond that of overall patient tumor mutation burden, and furthermore, found no association between checkpoint based fitness and tumor T-cell infiltration, cytolytic activity, and abundance (tumor infiltrating lymphocyte, TIL, burden). In addition, we investigated the key assumption of viral epitope similarity driving immune response in the hepatitis B virally infected liver cancer TCGA cohort, and uncovered suggestive evidence that tumor neoepitopes actually dominate viral epitopes in putative immunogenicity and plausibly drive immune response and recruitment.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Bubie A,Gonzalez-Kozlova E,Akers N,Villanueva A,Losic Bdoi
10.1038/s41598-020-61992-2subject
Has Abstractpub_date
2020-03-19 00:00:00pages
5062issue
1issn
2045-2322pii
10.1038/s41598-020-61992-2journal_volume
10pub_type
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