Customized Predictions of Peptide-MHC Binding and T-cell Epitopes Using EPIMHC

Overview

Journal Methods Mol Biol

Specialty Molecular Biology

Date 2014 Jul 23

PMID 25048133

Citations 4

Authors

Magdalena Molero-Abraham

Esther M Lafuente

Pedro Reche

Affiliations

Soon will be listed here.

Abstract

Peptide binding to major histocompatibility complex (MHC) molecules is the most selective requisite for T-cell recognition. Therefore, prediction of peptide-MHC binding is the main basis for anticipating T-cell epitopes. A very popular and accurate method to predict peptide-MHC binding is based on motif-profiles and here we show how to make them using EPIMHC (http://imed.med.ucm.es/epimhc/). EPIMHC is a database of T-cell epitopes and MHC-binding peptides that unlike any related resource provides a framework for computational vaccinology. In this chapter, we describe how to derive peptide-MHC binding motif-profiles in EPIMHC and use them to predict peptide-MHC binding and T-cell epitopes. Moreover, we show evidence that customization of peptide-MHC binding predictors can lead to enhanced epitope predictions.

Citing Articles

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Mansurkhodzhaev A, Barbosa C, Mishto M, Liepe J Front Immunol. 2021; 12:614276.

PMID: 33717099 PMC: 7943738. DOI: 10.3389/fimmu.2021.614276.

Computational assembly of a human Cytomegalovirus vaccine upon experimental epitope legacy.

Quinzo M, Lafuente E, Zuluaga P, Flower D, Reche P BMC Bioinformatics. 2019; 20(Suppl 6):476.

PMID: 31823715 PMC: 6905002. DOI: 10.1186/s12859-019-3052-6.

Fundamentals and Methods for T- and B-Cell Epitope Prediction.

Sanchez-Trincado J, Gomez-Perosanz M, Reche P J Immunol Res. 2018; 2017:2680160.

PMID: 29445754 PMC: 5763123. DOI: 10.1155/2017/2680160.

Inferring Protective CD8+ T-Cell Epitopes for NS5 Protein of Four Serotypes of Dengue Virus Chinese Isolates Based on HLA-A, -B and -C Allelic Distribution: Implications for Epitope-Based Universal Vaccine Design.

Shi J, Sun J, Wu M, Hu N, Li J, Li Y PLoS One. 2015; 10(9):e0138729.

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