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Related Concept Videos

Antigen Processing Pathways01:31

Antigen Processing Pathways

MHC molecules are key players in the immune response, enabling T cells to recognize and respond to specific antigens. They are present on the surface of all nucleated cells in the body and are instrumental in presenting antigens to T cells and activating them. T cells recognize the MHC-antigen complex and initiate an immune response. MHC class I and MHC class II are two main types of MHC molecules, each associated with a distinct antigen processing pathway.
MHC Class I: Presenting Endogenous...
Antigens Involved in Adaptive Immunity01:26

Antigens Involved in Adaptive Immunity

An antigen is any substance the immune system identifies as foreign and potentially harmful to the body, prompting an immune response. Antigens have two functional properties: immunogenicity and reactivity. Immunogenicity is the ability of an antigen to stimulate a specific immune response. At the same time, reactivity describes the antigen's ability to react with the cells and antibodies produced in response to it.
Complete Antigens
Complete antigens possess both immunogenicity and reactivity.
Proteomics01:33

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...

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Related Experiment Video

Updated: May 22, 2026

Immunopeptidomics: Isolation of Mouse and Human MHC Class I- and II-Associated Peptides for Mass Spectrometry Analysis
09:32

Immunopeptidomics: Isolation of Mouse and Human MHC Class I- and II-Associated Peptides for Mass Spectrometry Analysis

Published on: October 15, 2021

Proteome sampling by the HLA class I antigen processing pathway.

Ilka Hoof1, Debbie van Baarle, William H Hildebrand

  • 1Theoretical Biology and Bioinformatics, Utrecht University, Utrecht, The Netherlands. ilka.hoof@gmail.com

Plos Computational Biology
|May 23, 2012
PubMed
Summary
This summary is machine-generated.

This study reveals that protein abundance, not just gene expression, significantly influences which peptides are presented by HLA class I molecules. Understanding these factors aids in identifying autoimmune targets and vaccine candidates.

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Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation
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Area of Science:

  • Immunology
  • Proteomics
  • Bioinformatics

Background:

  • The human leukocyte antigen (HLA) class I peptide repertoire is shaped by antigen processing and HLA binding.
  • Peptide elution studies show only a fraction of the proteome is presented on the cell surface.

Purpose of the Study:

  • To quantify the contribution of individual factors in shaping the HLA class I peptide repertoire.
  • To develop a predictive model for peptide sampling probability.

Main Methods:

  • Combined peptide elution data with in silico predictions of antigen processing and presentation.
  • Integrated gene expression and protein abundance data.
  • Utilized logistic regression to model the relative impact of various factors.

Main Results:

  • Gene expression, protein abundance, and potential binding peptide rate impact sampling probability.
  • C-terminal processing efficiency and HLA binding affinity determine presented peptide identity.
  • Protein abundance is a superior predictor of sampling probability compared to gene expression.

Conclusions:

  • Developed a model that significantly discriminates between sampled and non-sampled proteins.
  • The approach can predict sampling probability for self and pathogen proteins.
  • This has implications for identifying autoimmune antigens and vaccine targets.