Fundamentals and methods for T‐and B‐cell epitope prediction

JL Sanchez-Trincado… - Journal of …, 2017 - Wiley Online Library
Adaptive immunity is mediated by T‐and B‐cells, which are immune cells capable of
developing pathogen‐specific memory that confers immunological protection. Memory and …

Epitope-based vaccine design: a comprehensive overview of bioinformatics approaches

S Parvizpour, MM Pourseif, J Razmara, MA Rafi… - Drug Discovery …, 2020 - Elsevier
Highlights•Epitope vaccines provide maximal therapeutic efficacy with minimal side
effects.•Reverse vaccinology can be used for designing epitope vaccines.•Computational …

BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes

MC Jespersen, B Peters, M Nielsen… - Nucleic acids …, 2017 - academic.oup.com
Antibodies have become an indispensable tool for many biotechnological and clinical
applications. They bind their molecular target (antigen) by recognizing a portion of its …

BepiPred‐3.0: Improved B‐cell epitope prediction using protein language models

JN Clifford, MH Høie, S Deleuran, B Peters… - Protein …, 2022 - Wiley Online Library
B‐cell epitope prediction tools are of great medical and commercial interest due to their
practical applications in vaccine development and disease diagnostics. The introduction of …

Maxout networks

I Goodfellow, D Warde-Farley, M Mirza… - International …, 2013 - proceedings.mlr.press
We consider the problem of designing models to leverage a recently introduced
approximate model averaging technique called dropout. We define a simple new model …

Machine learning for biologics: opportunities for protein engineering, developability, and formulation

H Narayanan, F Dingfelder, A Butté, N Lorenzen… - Trends in …, 2021 - cell.com
Successful biologics must satisfy multiple properties including activity and particular
physicochemical features that are globally defined as developability. These multiple …

An introduction to B‐cell epitope mapping and in silico epitope prediction

L Potocnakova, M Bhide… - Journal of immunology …, 2016 - Wiley Online Library
Identification of B‐cell epitopes is a fundamental step for development of epitope‐based
vaccines, therapeutic antibodies, and diagnostic tools. Epitope‐based antibodies are …

Comprehensive serological profiling of human populations using a synthetic human virome

GJ Xu, T Kula, Q Xu, MZ Li, SD Vernon, T Ndung'u… - Science, 2015 - science.org
Introduction The collection of viruses found to infect humans can have profound effects on
human health. In addition to directly causing acute or chronic illness, viral infection can alter …

[HTML][HTML] iBCE-EL: a new ensemble learning framework for improved linear B-cell epitope prediction

B Manavalan, RG Govindaraj, TH Shin… - Frontiers in …, 2018 - frontiersin.org
Identification of B-cell epitopes (BCEs) is a fundamental step for epitope-based vaccine
development, antibody production, and disease prevention and diagnosis. Due to the …

Retrieval and investigation of data on SARS-CoV-2 and COVID-19 using bioinformatics approach

M Fahmi, VD Kharisma, ANM Ansori, M Ito - Coronavirus disease-COVID …, 2021 - Springer
Sudden emergence and a rapid outbreak of SARS-CoV-2 accompanied by a devastating
impact on the economy and public health has driven extensive scientific mobilization to …