[PDF] nature.com

HLA3DB: comprehensive annotation of peptide/HLA complexes enables blind structure prediction of T cell epitopes

S Gupta, S Nerli, S Kutti Kandy, GL Mersky… - Nature …, 2023 - nature.com
… Additionally, independent testing using a blind set of targets shows comparable … enable
accurate modeling of peptide/HLA structures at scale, paving the way for accurate prediction of …
被引用次数：15 相关文章 所有 13 个版本

HLA3DB: Comprehensive annotation of peptide/HLA complexes enables blind structure prediction of T cell epitopes

S Gupta, S Nerli, SK Kandy, GL Mersky, N Sgourakis - Biophysical Journal, 2024 - cell.com
… analysis of X-ray crystal structures within a curated database (HLA3DB) shows that pHLA
complexes … modeling approach for nonamer peptide/HLA structures named RepPred. Our …
相关文章 所有 2 个版本
[PDF] springer.com

Peptide binding predictions for HLA DR, DP and DQ molecules

P Wang, J Sidney, Y Kim, A Sette, O Lund, M Nielsen… - BMC …, 2010 - Springer
… three dimensional structures of HLA peptide complexes solved by … implemented prediction
methods, we integrated two new … re-implemented in Python to allow better integration with the …
被引用次数：725 相关文章 所有 30 个版本
[PDF] biorxiv.org

A structure-guided approach to predict MHC-I restriction of T cell receptors for public antigens

S Gupta, N Sgourakis - bioRxiv, 2024 - biorxiv.org
… least 108 epitopic peptides as peptide/HLA (pHLA) 28 complexes, ensuring a wide coverage
… comprehensive annotation of peptide/HLA complexes enables blind structure prediction of …
被引用次数：2 相关文章 所有 4 个版本
[PDF] oup.comFull View

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

V Lin, M Cheung, R Gowthaman… - Nucleic Acids …, 2024 - academic.oup.com
… enable insights into structures … structure-focused database, HLA3DB, has recently become
available (33). While it includes useful annotations of structures of peptide–MHC complexes …
被引用次数：2 相关文章 所有 4 个版本
[PDF] nature.com

Direct prediction of intrinsically disordered protein conformational properties from sequence

JM Lotthammer, GM Ginell, D Griffith, R Emenecker… - Biophysical …, 2024 - cell.com
… (HLA3DB) shows that pHLA complexes encompassing … approach for nonamer peptide/HLA
structures named RepPred. … tracking (SPT) has enabled the quantitative analysis of dynamic …
被引用次数：90 相关文章 所有 15 个版本

Expectation maximised molecular dynamics: An unsupervised machine learning approach toward rapid estimation of biomolecular transition barriers

N Sengupta, P Dutta, A Kshirsagar, P Bibekar - Biophysical Journal, 2024 - cell.com
… (HLA3DB) shows that pHLA complexes encompassing … approach for nonamer peptide/HLA
structures named RepPred. … tracking (SPT) has enabled the quantitative analysis of dynamic …
相关文章 所有 2 个版本

Design of protein fold-switches using alchemical mutation free energy calculations

L Schmidt, BL de Groot - Biophysical Journal, 2024 - cell.com
… (HLA3DB) shows that pHLA complexes encompassing … approach for nonamer peptide/HLA
structures named RepPred. … tracking (SPT) has enabled the quantitative analysis of dynamic …
相关文章 所有 2 个版本

Deep-SPT, a deep learning toolbox for single particle tracking in 3D, reveals how biological motion encodes function

J Kæstel-Hansen, T Kirchhausen, NS Hatzakis - Biophysical Journal, 2024 - cell.com
… (HLA3DB) shows that pHLA complexes encompassing … approach for nonamer peptide/HLA
structures named RepPred. … tracking (SPT) has enabled the quantitative analysis of dynamic …
相关文章 所有 2 个版本
[PDF] minkaracombinelab.com

Dynamics of surfactant protein B at the alveolar air-liquid interface: Insights from molecular modeling and simulations

M Minkara, T Locke - Biophysical Journal, 2024 - cell.com
… Here, we present a theoretical approach that allows us to relate … (HLA3DB) shows that pHLA
complexes encompassing … approach for nonamer peptide/HLA structures named RepPred. …
相关文章 所有 4 个版本