Bioinformatics Resources and Tools for Conformational B-Cell Epitope Prediction

Abstract

Identification of epitopes which invoke strong humoral responses is an essential issue in the field of immunology. Localizing epitopes by experimental methods is expensive in terms of time, cost, and effort; therefore, computational methods feature for its low cost and high speed was employed to predict B-cell epitopes. In this paper, we review the recent advance of bioinformatics resources and tools in conformational B-cell epitope prediction, including databases, algorithms, web servers, and their applications in solving problems in related areas. To stimulate the development of better tools, some promising directions are also extensively discussed.

An Overview of Bioinformatics Tools and Resources in Allergy

“…ABCpred is based on standard feed-forward (FNN) and recurrent neural network (RNN) for predicting B-cell epitopes in an antigenic sequence with an estimated accuracy of 65.9% [65].…”

An overview of bioinformatics tools for epitope prediction: Implications on vaccine development

“…Continuous B cell epitope prediction is very similar to T cell epitope prediction, which has mainly been based on the amino acid properties such as hydrophilicity, charge, exposed surface area and secondary structure. Discontinuous B cell epitope prediction requires 3D structure of the antigen [54][55][56]. To date, some specific resources to predict continuous or discontinuous B-cell epitopes are available on the Web (Table 3).…”

“…The prediction accuracy for models based on these properties varies from 52.92% to 57.53% [57]. The ABCpred server, which is based on neural networks, has an estimated accuracy of 65.93% [54]. Another server called BepiPred predicts the location of linear B-cell epitopes using a combination of a hidden Markov model and a propensity scale method [58].…”

Design and Construction of Chimeric VP8-S2 Antigen for Bovine Rotavirus and Bovine Coronavirus

“…The accuracy of this computational approach has been greatly enhanced using statistical methods. 33 Many of researchers have used the VP8 and S2 antigens as a candidate vaccine in different expression schemes like baculovirus, 34 E.coli, 35,36 and concluded that these antigens can be considered an immunogen in vaccine studies against the BRV and BCV. 37,7 The main strategy in this study was to design a chimeric antigen (named VP8-S2) carrying various epitopes of the BRV and BCV for co-expression them into E.coli.…”