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Updated: Jun 22, 2026

Immunopeptidomics: Isolation of Mouse and Human MHC Class I- and II-Associated Peptides for Mass Spectrometry Analysis
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Published on: October 15, 2021

Naturally presented peptides on major histocompatibility complex I and II molecules eluted from central nervous

Nicolas Fissolo1, Sabrina Haag, Katrien L de Graaf

  • 1Hertie Institute for Clinical Brain Research, Experimental Neuroimmunology, University of Tuebingen, 72076 Tuebingen, Germany.

Molecular & Cellular Proteomics : MCP
|June 18, 2009
PubMed

Tandem mass spectrometry was used to identify naturally processed peptides bound to major histocompatibility complex (MHC) I and MHC II molecules in central nervous system (CNS) of eight patients with multiple sclerosis (MS). MHC molecules were purified from autopsy CNS material by immunoaffinity chromatography with monoclonal antibody directed against HLA-A, -B, -C, and -DR. Subsequently peptides were separated by reversed-phase HPLC and analyzed by mass spectrometry. Database searches revealed 118 amino acid sequences from self-proteins eluted from MHC I molecules and 191 from MHC II molecules, corresponding to 174 identified source proteins. These sequences define previously known and potentially novel autoantigens in MS possibly involved in disease induction and antigen spreading. Taken together, we have initiated the characterization of the CNS-expressed MHC ligandome in CNS diseases and were able to demonstrate the presentation of naturally processed myelin basic protein peptides in the brain of MS patients.

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