5 Key Takeaways

• 1

  Immunopeptidomics uses liquid chromatography-tandem mass spectrometry to profile antigenic peptides displayed by major histocompatibility complex molecules.

• 2

  In pancreatic ductal adenocarcinoma, immunopeptidomics can help identify tumor-specific and T-cell targets, including spliced, modified, and cryptic peptides.

• 3

  Immunopeptidomics workflows combine immunoaffinity purification, high-resolution mass spectrometry, and bioinformatics to characterize diverse HLA-bound peptides.

• 4

  Data-dependent acquisition provides high-confidence fragmentation spectra, whereas data-independent acquisition supports broad coverage and reproducibility across replicates.

• 5

  Electron-activated dissociation can resolve peptide isomers and labile modifications, while targeted methods such as multiple reaction monitoring can validate and quantify selected antigens.