bioRxiv preprint doi: https://doi.org/10.1101/056101; this version posted May 30, 2016. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Pan-cancer immunogenomic analyses reveals genotype-immunophenotype relationships and predictors of response to checkpoint blockade Pornpimol Charoentong†, Francesca Finotello†, Mihaela Angelova†, Clemens Mayer, Mirjana Efremova, Dietmar Rieder, Hubert Hackl, Zlatko Trajanoski* 1Biocenter, Division of Bioinformatics, Medical University of Innsbruck, Innsbruck, Austria †Equal contribution *To whom correspondence should be addressed:
[email protected] Zlatko Trajanoski, PhD Biocenter, Division of Bioinformatics Medical University of Innsbruck Innrain 80, 6020 Innsbruck Austria Email:
[email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/056101; this version posted May 30, 2016. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. ABSTRACT: Current major challenges in cancer immunotherapy include identification of patients likely to respond to therapy and development of strategies to treat non-responders. To address these problems and facilitate understanding of the tumor-immune cell interactions we inferred the cellular composition and functional orientation of immune infiltrates, and characterized tumor antigens in 19 solid cancers from The Cancer Genome Atlas (TCGA). Decomposition of immune infiltrates revealed prognostic cellular profiles for distinct cancers, and showed that the tumor genotypes determine immunophenotypes and tumor escape mechanisms.