IConMHC: a deep learning convolutional neural network model to predict peptide and MHC-I binding affinity
Sign Up to like & getrecommendations! Published in 2020 at "Immunogenetics"
DOI: 10.1007/s00251-020-01163-9
Abstract: Tumor-specific neoantigens are mutated self-peptides presented by tumor cell major histocompatibility complex (MHC) molecules and are necessary to elicit host’s anti-cancer cytotoxic T cell responses. It could be specifically recognized by neoantigen-specific T cell receptors… read more here.
Keywords: peptide mhc; model; mhc binding; mhc ... See more keywords
Combined assessment of MHC binding and antigen abundance improves T cell epitope predictions
Sign Up to like & getrecommendations! Published in 2022 at "iScience"
DOI: 10.1016/j.isci.2022.103850
Abstract: Many steps of the MHC class I antigen processing pathway can be predicted using computational methods. Here we show that epitope predictions can be further improved by considering abundance levels of peptides’ source proteins. We… read more here.
Keywords: abundance; antigen abundance; mhc binding; epitope predictions ... See more keywords
Dynamics-Based Peptide-MHC Binding Optimization by a Convolutional Variational Autoencoder: A Use-Case Model for CASTELO.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of chemical theory and computation"
DOI: 10.1021/acs.jctc.1c00870
Abstract: An unsolved challenge in the development of antigen-specific immunotherapies is determining the optimal antigens to target. Comprehension of antigen-major histocompatibility complex (MHC) binding is paramount toward achieving this goal. Here, we apply CASTELO, a combined… read more here.
Keywords: variational autoencoder; optimization; convolutional variational; mhc binding ... See more keywords
Level of neo-epitope predecessor and mutation type determine T cell activation of MHC binding peptides
Sign Up to like & getrecommendations! Published in 2019 at "Journal for Immunotherapy of Cancer"
DOI: 10.1186/s40425-019-0595-z
Abstract: BackgroundTargeting epitopes derived from neo-antigens (or “neo-epitopes”) represents a promising immunotherapy approach with limited off-target effects. However, most peptides predicted using MHC binding prediction algorithms do not induce a CD8 + T cell response, and there is… read more here.
Keywords: binding peptides; mutation type; mhc binding; neo epitope ... See more keywords
A high-throughput yeast display approach to profile pathogen proteomes for MHC-II binding
Sign Up to like & getrecommendations! Published in 2022 at "eLife"
DOI: 10.7554/elife.78589
Abstract: T cells play a critical role in the adaptive immune response, recognizing peptide antigens presented on the cell surface by Major Histocompatibility Complex (MHC) proteins. While assessing peptides for MHC binding is an important component… read more here.
Keywords: mhc binding; yeast display; high throughput; approach ... See more keywords