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Mutational Analysis of Gene Fusions Predicts Novel MHC Class I-Restricted T-Cell Epitopes and Immune Signatures in a Subset of Prostate Cancer.

Clin. Cancer Res.. 2017; 
Kalina Jennifer L,Neilson David S,Lin Yen-Yi,Hamilton Phineas T,Comber Alexandra P,Loy Emma M H,Sahinalp S Cenk,Collins Colin C,Hach Faraz,Lum Juli
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摘要

Gene fusions are frequently found in prostate cancer and may result in the formation of unique chimeric amino acid sequences (CASQ) that span the breakpoint of two fused gene products. This study evaluated the potential for fusion-derived CASQs to be a source of tumor neoepitopes, and determined their relationship to patterns of immune signatures in prostate cancer patients. A computational strategy was used to identify CASQs and their corresponding predicted MHC class I epitopes using RNA-Seq data from The Cancer Genome Atlas of prostate tumors. peptide-specific T-cell expansion was performed to identify CASQ-reactive T cells. A multivariate analysis was used to relate patterns of -predicted tumor-infiltrat... More

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