High-Throughput, Fast, and Sensitive Immunopeptidomics Sample Processing for Mass Spectrometry

  • Fabio Marino
  • Chloe Chong
  • Justine Michaux
  • Michal Bassani-SternbergEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1913)


Comprehensive knowledge of the HLA class I and class II peptides presented to T cells is crucial for designing innovative therapeutics against cancer and other diseases. So far, methodologies for recovery of HLA class I and II peptides for subsequent mass spectrometry-based analysis have been a major limitation. In this chapter we describe a detailed protocol for a high-throughput, reproducible, and sensitive immunoaffinity-purification of HLA-I and HLA-II peptides from up to 96 samples in a plate format, suitable for tissue samples and cell lines. Our methodology reduces sample handling, has a competitive peptide yield, and can be completed within 5 h. This simplified pipeline is applicable for basic and clinical applications.

Key words

Immunopeptidomics Human leukocyte antigen Antigen processing and presentation Affinity purification Mass spectrometry HLA class I and HLA class II 


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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Fabio Marino
    • 1
    • 2
  • Chloe Chong
    • 1
    • 2
  • Justine Michaux
    • 1
    • 2
  • Michal Bassani-Sternberg
    • 1
    • 2
    Email author
  1. 1.Ludwig Centre for Cancer ResearchUniversity of LausanneEpalingesSwitzerland
  2. 2.Department of OncologyUniversity Hospital of Lausanne (CHUV)LausanneSwitzerland

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