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Tumor fitness, immune exhaustion and clinical outcomes: impact of immune checkpoint inhibitors.


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.

SUBMITTER: Bubie A 

PROVIDER: S-EPMC7081289 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature

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Tumor fitness, immune exhaustion and clinical outcomes: impact of immune checkpoint inhibitors.

Bubie Adrian A   Gonzalez-Kozlova Edgar E   Akers Nicholas N   Villanueva Augusto A   Losic Bojan B  

Scientific reports 20200319 1


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 pat  ...[more]

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