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

We provide a systematic and inclusive review of the most relevant B- and T-cell epitope prediction methods and tools, paying particular attention to their foundations

Jose L. Sanchez-Trincado; Marta Gomez-Perosanz; Pedro A. Reche

2017

Scholarcy highlights

  • The immune system is typically divided into two categories, innate and adaptive
  • Prediction of peptide binding to major histocompatibility complex II molecules readily discriminate CD4 T-cell epitopes, but cannot tell their ability to activate the response of specific CD4 T-cell subsets
  • A relevant example is the work by Dhanda et al who generated classifiers capable of predicting potential peptide inducers of interleukin 4 secretion, typical of Th2 cells, by training support vector machines models on experimentally validated IL4 inducing and noninducing MHC class II binders
  • T-cell epitope prediction remains an integral part of T-cell epitope mapping approaches
  • The great majority of B-cell epitopes are conformational and yet predicting conformational epitopes have few applications, as they cannot be isolated from their protein context
  • The key is to improve current methods for B-cell epitope prediction and to develop novel approaches and platforms for epitope grafting onto suitable scaffolds capable of replacing the native antigen

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