Cargando…

Binding peptide generation for MHC Class I proteins with deep reinforcement learning

MOTIVATION: MHC Class I protein plays an important role in immunotherapy by presenting immunogenic peptides to anti-tumor immune cells. The repertoires of peptides for various MHC Class I proteins are distinct, which can be reflected by their diverse binding motifs. To characterize binding motifs fo...

Descripción completa

Detalles Bibliográficos
Autores principales:	Chen, Ziqi, Zhang, Baoyi, Guo, Hongyu, Emani, Prashant, Clancy, Trevor, Jiang, Chongming, Gerstein, Mark, Ning, Xia, Cheng, Chao, Min, Martin Renqiang
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2023
Materias:	Original Paper
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9907221/ https://www.ncbi.nlm.nih.gov/pubmed/36692135 http://dx.doi.org/10.1093/bioinformatics/btad055

Ejemplares similares

Ranking-Based Convolutional Neural Network Models for Peptide-MHC Class I Binding Prediction
por: Chen, Ziqi, et al.
Publicado: (2021)

Motifs and supermotifs for MHC class II binding peptides
Publicado: (1995)

Deep convolutional neural networks for pan-specific peptide-MHC class I binding prediction
por: Han, Youngmahn, et al.
Publicado: (2017)

Prediction of MHC class I binding peptides, using SVMHC
por: Dönnes, Pierre, et al.
Publicado: (2002)

MHCAttnNet: predicting MHC-peptide bindings for MHC alleles classes I and II using an attention-based deep neural model
por: Venkatesh, Gopalakrishnan, et al.
Publicado: (2020)

Improving peptide-MHC class I binding prediction for unbalanced datasets
por: Sales, Ana Paula, et al.
Publicado: (2008)

The Utility of Supertype Clustering in Prediction for Class II MHC-Peptide Binding
por: Shen, Wen-Jun, et al.
Publicado: (2018)

CapsNet-MHC predicts peptide-MHC class I binding based on capsule neural networks
por: Kalemati, Mahmood, et al.
Publicado: (2023)

Prediction of MHC class II binding peptides based on an iterative learning model
por: Murugan, Naveen, et al.
Publicado: (2005)

Limitations of Ab Initio Predictions of Peptide Binding to MHC Class II Molecules
por: Zhang, Hao, et al.
Publicado: (2010)

Prediction of MHC class I binding peptides using probability distribution functions
por: Soam, Sudhir Singh, et al.
Publicado: (2009)

Citrullination only infrequently impacts peptide binding to HLA class II MHC
por: Sidney, John, et al.
Publicado: (2017)

DeepLigand: accurate prediction of MHC class I ligands using peptide embedding
por: Zeng, Haoyang, et al.
Publicado: (2019)

Evaluation of MHC class I peptide binding prediction servers: Applications for vaccine research
por: Lin, Hong Huang, et al.
Publicado: (2008)

Amino acid biophysical properties in the statistical prediction of peptide-MHC class I binding
por: Ray, Surajit, et al.
Publicado: (2007)

Functional recombinant MHC class II molecules and high-throughput peptide-binding assays
por: Justesen, Sune, et al.
Publicado: (2009)

Prediction of peptides binding to MHC class I and II alleles by temporal motif mining
por: Meydan, Cem, et al.
Publicado: (2013)

Expression levels of MHC class I molecules are inversely correlated with promiscuity of peptide binding
por: Chappell, Paul E, et al.
Publicado: (2015)

MHC2SKpan: a novel kernel based approach for pan-specific MHC class II peptide binding prediction
por: Guo, Linyuan, et al.
Publicado: (2013)

The MHC class I peptide repertoire is molded by the transcriptome
por: Fortier, Marie-Hélène, et al.
Publicado: (2008)

Predicting peptides binding to MHC class II molecules using multi-objective evolutionary algorithms
por: Rajapakse, Menaka, et al.
Publicado: (2007)

Apparent lack of MHC restriction in binding of class I HLA molecules to solid-phase peptides
Publicado: (1990)

Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model
por: Bordner, Andrew J, et al.
Publicado: (2010)

Porcine major histocompatibility complex (MHC) class I molecules and analysis of their peptide-binding specificities
por: Pedersen, Lasse Eggers, et al.
Publicado: (2011)

HLA-DM catalytically enhances peptide dissociation by sensing peptide–MHC class II interactions throughout the peptide-binding cleft
por: Reyes-Vargas, Eduardo, et al.
Publicado: (2020)

MHC class II-derived peptides can bind to class II molecules, including self molecules, and prevent antigen presentation
Publicado: (1990)

A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach
por: Wang, Peng, et al.
Publicado: (2008)

Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores
por: Salomon, Jesper, et al.
Publicado: (2006)

T-Cell Receptors Binding Orientation over Peptide/MHC Class I Is Driven by Long-Range Interactions
por: Ferber, Mathias, et al.
Publicado: (2012)

In silico design of MHC class I high binding affinity peptides through motifs activation map
por: Xiao, Zhoujian, et al.
Publicado: (2018)

MHCVision: estimation of global and local false discovery rate for MHC class I peptide binding prediction
por: Pearngam, Phorutai, et al.
Publicado: (2021)

The strength of selection is consistent across both domains of the MHC class I peptide-binding groove in birds
por: Minias, Piotr, et al.
Publicado: (2021)

MetaMHC: a meta approach to predict peptides binding to MHC molecules
por: Hu, Xihao, et al.
Publicado: (2010)

SVRMHC prediction server for MHC-binding peptides
por: Wan, Ji, et al.
Publicado: (2006)

Model for the Peptide-Free Conformation of Class II MHC Proteins
por: Painter, Corrie A., et al.
Publicado: (2008)

Non-conventional sources of peptides presented by MHC class I
por: Starck, Shelley R., et al.
Publicado: (2011)

Regulation of MHC Class II-Peptide Complex Expression by Ubiquitination
por: Cho, Kyung-Jin, et al.
Publicado: (2013)

Properties of MHC Class I Presented Peptides That Enhance Immunogenicity
por: Calis, Jorg J. A., et al.
Publicado: (2013)

A Peptide Filtering Relation Quantifies MHC Class I Peptide Optimization
por: Dalchau, Neil, et al.
Publicado: (2011)

Selective immunosuppression by administration of major histocompatibility complex (MHC) class II-binding peptides. I. Evidence for in vivo MHC blockade preventing T cell activation
Publicado: (1992)

Cannot write session to /tmp/vufind_sessions/sess_ojn4hcs5u4cm7jdpmmehs7ahv0