Current tools for predicting cancer-specific T cell immunity.
Tumor exome and RNA sequencing data provide a systematic and unbiased view on cancer-specific expression, over-expression, and mutations of genes, which can be mined for personalized cancer vaccines and other immunotherapies. Of key interest are tumor-specific mutations, because T cells recognizing neoepitopes have the potential to be highly tumoricidal. Here, we review recent developments and technical advances in identifying MHC class I and class II-restricted tumor antigens, especially neoantigen derived MHC ligands, including in silico predictions, immune-peptidome analysis by mass spectrometry, and MHC ligand validation by biochemical methods on T cells.
Ludwig Center for Cancer Research, University of Lausanne, Epalinges, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.
David
D
Gfeller
Department of Oncology, University Hospital of Lausanne , Lausanne, Switzerland.
Michal
M
Bassani-Sternberg
Ludwig Center for Cancer Research, University of Lausanne , Epalinges, Switzerland.
Julien
J
Schmidt
Ludwig Center for Cancer Research, University of Lausanne , Epalinges, Switzerland.
Immanuel F
IF
Luescher
Cancer; MHC; T cells; exome; mutation; peptide; peptidome; transcriptome