Computational prediction of the peptides presented on major histocompatibility complex
(MHC) class I proteins is an important tool for studying T cell immunity. The data available to …

Peptide identification in liquid chromatography-tandem mass spectrometry (LC-MS/MS)
experiments relies on computational algorithms for matching acquired MS/MS spectra …

Immunotherapy is a promising treatment for triple-negative breast cancer (TNBC), but
patients relapse, highlighting the need to understand the mechanisms of resistance. We …

The recent development of machine learning methods to identify peptides in complex mass
spectrometric data constitutes a major breakthrough in proteomics. Longstanding methods …

Public neoantigens (NeoAgs) represent an elite class of shared cancer-specific epitopes
derived from recurrently mutated driver genes. Here we describe a high-throughput platform …

Cancer is a leading cause of death worldwide and, despite new targeted therapies and
immunotherapies, many patients with advanced-stage-or high-risk cancers still die, owing to …

The T cell receptor (TCR) complex is a naturally occurring antigen sensor that detects,
amplifies and coordinates cellular immune responses to epitopes derived from cell surface …

Characterizing the human leukocyte antigen (HLA) bound ligandome by mass spectrometry
(MS) holds great promise for developing vaccines and drugs for immune-oncology. Still, the …

The majority of oncogenic drivers are intracellular proteins, thus constraining their
immunotherapeutic targeting to mutated peptides (neoantigens) presented by individual …

Post-translational modification (PTM) of antigens provides an additional source of
specificities targeted by immune responses to tumors or pathogens, but identifying antigen …