EpiDope: a deep neural network for linear B-cell epitope prediction

B-cell Epitope Prediction

When a living organism encounters a pathogenic virus ormicrobe, the B cells of the immune system recognize the pathogen’s antigens by their membrane-bound immunoglobulin receptors and, in response, produce antibodies specific to these antigens. The term antigen refers to any entity—a cell, a macromolecular assembly, or a molecule—that may be bound by either a B-cell receptor or an antibody mole...

B and T-Cell Epitope Prediction of the OMP25 Antigen for Developing Brucella melitensis Vaccines for Sheep

Brucellosis, produced by Brucella species, is a disease that causes severe economic losses for livestock farms worldwide Due to serious economic and medical consequences of this disease, many efforts have been made to prevent the infection through the use of recombinant vaccines based on Brucella outer membrane protein (OMP) antigens. In the present study, a wide range of on-line prediction sof...

A Recurrent Neural Network Model for Solving Linear Semidefinite Programming

In this paper we solve a wide rang of Semidefinite Programming (SDP) Problem by using Recurrent Neural Networks (RNNs). SDP is an important numerical tool for analysis and synthesis in systems and control theory. First we reformulate the problem to a linear programming problem, second we reformulate it to a first order system of ordinary differential equations. Then a recurrent neural network...

prediction of linear and conformational b cell epitope of her2 ecd for monoclonal antibody development using immunoinformatic methods

Rapid B Cell Linear Epitope Mapping

Conformational epitopes are thought to form the majority of strong antibody binding epitopes on most proteins. However numerous conformational epitopes may also be recognizable as linear epitopes, although with lower affinity. Linear B cell epitopes typically vary from 5 to 20 amino acids in length. If the antibody-binding region of the protein is unknown, an overlapping peptide library can be ...