摘要：SummaryComprehensive characterization of tumor antigens is essential for the design of cancer immunotherapies, and mass spectrometry (MS)-based immunopeptidomics enables high-throughput identification of major histocompatibility complex (MHC)-bound peptide antigensin vivo. Here we construct an immunopeptidome atlas of human cancer through an extensive collection of 43 published immunopeptidomic datasets and standardized analysis of 81.6 million MS/MS spectra using an open search engine. Our analysis greatly expands the current knowledge of MHC-bound antigens, including an unprecedented characterization of post-translationally modified antigens and their cancer-association. We also perform systematic analysis of cancer-testis antigens, cancer-associated antigens, and neoantigens. We make all these data together with annotated MS/MS spectra supporting identification of each antigen in an easily browsable web portal named cancer antigen atlas (caAtlas). caAtlas provides a central resource for the selection and prioritization of MHC-bound peptides forin vitroHLA binding assay and immunogenicity testing, which will pave the way to eventual development of cancer immunotherapies.Graphical abstractDisplay OmittedHighlights•Extensive collection of 43 immunopeptidomic datasets with 1018 samples•Standardized and rigorous identification of HLA-bound peptides, including PTM peptides•Comprehensive annotation of CT antigens and cancer-associated antigens•User-friendly data dissemination through the caAtlas web portalImmunology; Proteomics; Cancer
