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Workflow to analyze of major histocompatibility complex (MHC)-eluted peptides by mass-spectrometric (MS). A sample is lysed, pMHC complexes are captured and peptides are purified by immunoaffinity purification using MHC-specific immobilized antibodies. Eluted peptides are separated by high pressure liquid chromatography (HPLC), analyzed by MS, and the resulting data are computationally processed.
