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Accelerating protein docking in ZDOCK using an advanced 3D convolution library

PloS one, 2011-09, Vol.6 (9), p.e24657-e24657

2011

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Benchmarking AlphaFold for protein complex modeling reveals accuracy determinants

Protein science, 2022-08, Vol.31 (8), p.e4379-n/a

2022

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ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers

Bioinformatics (Oxford, England), 2014-06, Vol.30 (12), p.1771-1773

2014

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TCRmodel2: high-resolution modeling of T cell receptor recognition using deep learning

Nucleic acids research, 2023-07, Vol.51 (W1), p.W569-W576

2023

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TCR3d 2.0: expanding the T cell receptor structure database with new structures, tools and interactions

Nucleic acids research, 2024-09

2024

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Updates to the Integrated Protein–Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2

Journal of molecular biology, 2015-09, Vol.427 (19), p.3031-3041

2015

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Proscan: a structure-based proline design web server

Nucleic acids research, 2024-05, Vol.52 (W1), p.W280-W286

2024

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Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

Genome research, 2012-09, Vol.22 (9), p.1798-1812

2012

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Structural basis for oligoclonal T cell recognition of a shared p53 cancer neoantigen

Nature communications, 2020-06, Vol.11 (1), p.2908-2908, Article 2908

2020

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Structural basis for T cell recognition of cancer neoantigens and implications for predicting neoepitope immunogenicity

Frontiers in immunology, 2023-11, Vol.14, p.1303304-1303304

2023

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Structural assessment of HLA-A2-restricted SARS-CoV-2 spike epitopes recognized by public and private T-cell receptors

Nature communications, 2022-01, Vol.13 (1), p.19-19, Article 19

2022

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Structural Features of Antibody-Peptide Recognition

Frontiers in immunology, 2022-07, Vol.13, p.910367

2022

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Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas

Nature communications, 2020-04, Vol.11 (1), p.1806-14, Article 1806

2020

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Structure-Based and Rational Design of a Hepatitis C Virus Vaccine

Viruses, 2021-05, Vol.13 (5), p.837

2021

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Broadly neutralizing antibodies from an individual that naturally cleared multiple hepatitis C virus infections uncover molecular determinants for E2 targeting and vaccine design

PLoS pathogens, 2019-05, Vol.15 (5), p.e1007772-e1007772

2019

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Structural and energetic profiling of SARS-CoV-2 receptor binding domain antibody recognition and the impact of circulating variants

PLoS computational biology, 2021-09, Vol.17 (9), p.e1009380-e1009380

2021

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Structure of engineered hepatitis C virus E1E2 ectodomain in complex with neutralizing antibodies

Nature communications, 2023-07, Vol.14 (1), p.3980-3980, Article 3980

2023

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Antigenicity and Immunogenicity of Differentially Glycosylated Hepatitis C Virus E2 Envelope Proteins Expressed in Mammalian and Insect Cells

Journal of virology, 2019-04, Vol.93 (7)

2019

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A single C-terminal residue controls SARS-CoV-2 spike trafficking and incorporation into VLPs

Nature communications, 2023-12, Vol.14 (1), p.8358-8358, Article 8358

2023

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Prediction of protein–protein binding free energies

Protein science, 2012-03, Vol.21 (3), p.396-404

2012

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Structural Basis for Penetration of the Glycan Shield of Hepatitis C Virus E2 Glycoprotein by a Broadly Neutralizing Human Antibody

The Journal of biological chemistry, 2015-04, Vol.290 (16), p.10117-10125

2015

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Hepatitis C Virus E1E2 Structure, Diversity, and Implications for Vaccine Development

Viruses, 2024-05, Vol.16 (5), p.803

2024

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TCR3d: The T cell receptor structural repertoire database

Bioinformatics (Oxford, England), 2019-12, Vol.35 (24), p.5323-5325

2019

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How structural adaptability exists alongside HLA-A2 bias in the human αβ TCR repertoire

Proceedings of the National Academy of Sciences - PNAS, 2016-03, Vol.113 (9), p.E1276-E1285

2016

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Computational design of the affinity and specificity of a therapeutic T cell receptor

PLoS computational biology, 2014-02, Vol.10 (2), p.e1003478-e1003478

2014

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Accelerating protein docking in ZDOCK using an advanced 3D convolution library

Benchmarking AlphaFold for protein complex modeling reveals accuracy determinants

ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers

TCRmodel2: high-resolution modeling of T cell receptor recognition using deep learning

TCR3d 2.0: expanding the T cell receptor structure database with new structures, tools and interactions

Updates to the Integrated Protein–Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2

Proscan: a structure-based proline design web server

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

Structural basis for oligoclonal T cell recognition of a shared p53 cancer neoantigen

Structural basis for T cell recognition of cancer neoantigens and implications for predicting neoepitope immunogenicity

Structural assessment of HLA-A2-restricted SARS-CoV-2 spike epitopes recognized by public and private T-cell receptors

Structural Features of Antibody-Peptide Recognition

Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas

Structure-Based and Rational Design of a Hepatitis C Virus Vaccine

Broadly neutralizing antibodies from an individual that naturally cleared multiple hepatitis C virus infections uncover molecular determinants for E2 targeting and vaccine design

Structural and energetic profiling of SARS-CoV-2 receptor binding domain antibody recognition and the impact of circulating variants

Structure of engineered hepatitis C virus E1E2 ectodomain in complex with neutralizing antibodies

Antigenicity and Immunogenicity of Differentially Glycosylated Hepatitis C Virus E2 Envelope Proteins Expressed in Mammalian and Insect Cells

A single C-terminal residue controls SARS-CoV-2 spike trafficking and incorporation into VLPs

Prediction of protein–protein binding free energies

Structural Basis for Penetration of the Glycan Shield of Hepatitis C Virus E2 Glycoprotein by a Broadly Neutralizing Human Antibody

Hepatitis C Virus E1E2 Structure, Diversity, and Implications for Vaccine Development

TCR3d: The T cell receptor structural repertoire database

How structural adaptability exists alongside HLA-A2 bias in the human αβ TCR repertoire

Computational design of the affinity and specificity of a therapeutic T cell receptor

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