Increased EThcD Efficiency on the Hybrid Orbitrap Excedion Pro Mass Analyzer Extends the Depth in Identification and Sequence Coverage of HLA Class I Immunopeptidomes.

ABSTRACT: Gaining a complete and unbiased understanding of the nontryptic peptide repertoire presented by human leukocyte antigen class I (HLA-I) complexes by LC-MS/MS is indispensable for therapy design for cancer, autoimmunity, and infectious diseases. A serious concern in HLA peptide analysis is that the routinely used collision-based fragmentation methods [collision-induced dissociation (CID)/higher-energy collision-induced dissociation (HCD)] do not always render sufficiently informative MS2 spectra, whereby gaps in the fragmentation sequence coverage prevent unambiguous assignments. Electron-transfer/higher-energy collision dissociation (EThcD) can be utilized to generate complementary ion series, i.e., b/y ions and c/z ions, resulting in richer, more informative MS2 spectra, thereby filling i

SUBMITTER: Kessler AL 

PROVIDER: S-EPMC12455206 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature