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NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data

Nucleic acids research, 2020-07, Vol.48 (W1), p.W449

2020

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GOnet: a tool for interactive Gene Ontology analysis

BMC bioinformatics, 2018-12, Vol.19 (1), p.470-470, Article 470

2018

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A Sequence Homology and Bioinformatic Approach Can Predict Candidate Targets for Immune Responses to SARS-CoV-2

Cell host & microbe, 2020-04, Vol.27 (4), p.671-680.e2

2020

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NetMHCpan-4.0: Improved Peptide-MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data

The Journal of immunology (1950), 2017-11, Vol.199 (9), p.3360-3368

2017

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Improved Prediction of MHC II Antigen Presentation through Integration and Motif Deconvolution of Mass Spectrometry MHC Eluted Ligand Data

Journal of proteome research, 2020-06, Vol.19 (6), p.2304-2315

2020

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Peptide binding predictions for HLA DR, DP and DQ molecules

BMC bioinformatics, 2010-11, Vol.11 (1), p.568-568, Article 568

2010

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ElliPro: a new structure-based tool for the prediction of antibody epitopes

BMC bioinformatics, 2008-12, Vol.9 (1), p.514-514, Article 514

2008

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Immunological memory to SARS-CoV-2 assessed for up to 8 months after infection

Science (American Association for the Advancement of Science), 2021-02, Vol.371 (6529)

2021

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Reliable B cell epitope predictions: impacts of method development and improved benchmarking

PLoS computational biology, 2012-12, Vol.8 (12), p.e1002829-e1002829

2012

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The Immune Epitope Database and Analysis Resource in Epitope Discovery and Synthetic Vaccine Design

Frontiers in immunology, 2017-03, Vol.8, p.278-278

2017

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Systematically benchmarking peptide-MHC binding predictors: From synthetic to naturally processed epitopes

PLoS computational biology, 2018-11, Vol.14 (11), p.e1006457-e1006457

2018

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Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression

Cell, 2018-11, Vol.175 (6), p.1701-1715.e16

2018

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Antibody Specific B-Cell Epitope Predictions: Leveraging Information From Antibody-Antigen Protein Complexes

Frontiers in immunology, 2019-02, Vol.10, p.298-298

2019

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Properties of MHC class I presented peptides that enhance immunogenicity

PLoS computational biology, 2013-10, Vol.9 (10), p.e1003266-e1003266

2013

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Dengue virus infection elicits highly polarized CX3CR1⁺ cytotoxic CD4⁺ T cells associated with protective immunity

Proceedings of the National Academy of Sciences - PNAS, 2015-08, Vol.112 (31), p.E4256-E4263

2015

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α-Synuclein-specific T cell reactivity is associated with preclinical and early Parkinson's disease

Nature communications, 2020-04, Vol.11 (1), p.1875-1875, Article 1875

2020

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A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach

PLoS computational biology, 2008-04, Vol.4 (4), p.e1000048-e1000048

2008

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Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method

BMC bioinformatics, 2005-05, Vol.6 (1), p.132-132, Article 132

2005

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Consistency of VDJ Rearrangement and Substitution Parameters Enables Accurate B Cell Receptor Sequence Annotation

PLoS computational biology, 2016-01, Vol.12 (1), p.e1004409-e1004409

2016

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Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior

BMC bioinformatics, 2009-11, Vol.10 (1), p.394-394, Article 394

2009

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De novo mutations in mitochondrial DNA of iPSCs produce immunogenic neoepitopes in mice and humans

Nature biotechnology, 2019-10, Vol.37 (10), p.1137-1144

2019

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Defining variant-resistant epitopes targeted by SARS-CoV-2 antibodies: A global consortium study

Science (American Association for the Advancement of Science), 2021-10, Vol.374 (6566), p.472-478

2021

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HLA class I supertypes: a revised and updated classification

BMC immunology, 2008-01, Vol.9 (1), p.1-1, Article 1

2008

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Likelihood-Based Inference of B Cell Clonal Families

PLoS computational biology, 2016-10, Vol.12 (10), p.e1005086-e1005086

2016

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Promoter-interacting expression quantitative trait loci are enriched for functional genetic variants

Nature genetics, 2021-01, Vol.53 (1), p.110-119

2021

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NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data

GOnet: a tool for interactive Gene Ontology analysis

A Sequence Homology and Bioinformatic Approach Can Predict Candidate Targets for Immune Responses to SARS-CoV-2

NetMHCpan-4.0: Improved Peptide-MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data

Improved Prediction of MHC II Antigen Presentation through Integration and Motif Deconvolution of Mass Spectrometry MHC Eluted Ligand Data

Peptide binding predictions for HLA DR, DP and DQ molecules

ElliPro: a new structure-based tool for the prediction of antibody epitopes

Immunological memory to SARS-CoV-2 assessed for up to 8 months after infection

Reliable B cell epitope predictions: impacts of method development and improved benchmarking

The Immune Epitope Database and Analysis Resource in Epitope Discovery and Synthetic Vaccine Design

Systematically benchmarking peptide-MHC binding predictors: From synthetic to naturally processed epitopes

Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression

Antibody Specific B-Cell Epitope Predictions: Leveraging Information From Antibody-Antigen Protein Complexes

Properties of MHC class I presented peptides that enhance immunogenicity

Dengue virus infection elicits highly polarized CX3CR1⁺ cytotoxic CD4⁺ T cells associated with protective immunity

α-Synuclein-specific T cell reactivity is associated with preclinical and early Parkinson's disease

A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach

Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method

Consistency of VDJ Rearrangement and Substitution Parameters Enables Accurate B Cell Receptor Sequence Annotation

Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior

De novo mutations in mitochondrial DNA of iPSCs produce immunogenic neoepitopes in mice and humans

Defining variant-resistant epitopes targeted by SARS-CoV-2 antibodies: A global consortium study

HLA class I supertypes: a revised and updated classification

Likelihood-Based Inference of B Cell Clonal Families

Promoter-interacting expression quantitative trait loci are enriched for functional genetic variants

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