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Atomic-Level Characterization of the Structural Dynamics of Proteins

Science (American Association for the Advancement of Science), 2010-10, Vol.330 (6002), p.341-346

2010

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Loss of conformational entropy in protein folding calculated using realistic ensembles and its implications for NMR-based calculations

Proceedings of the National Academy of Sciences - PNAS, 2014-10, Vol.111 (43), p.15396-15401

2014

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Accurate calculation of side chain packing and free energy with applications to protein molecular dynamics

PLoS computational biology, 2018-12, Vol.14 (12), p.e1006342-e1006342

2018

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Trajectory-based training enables protein simulations with accurate folding and Boltzmann ensembles in cpu-hours

PLoS computational biology, 2018-12, Vol.14 (12), p.e1006578-e1006578

2018

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Accurate structure prediction of biomolecular interactions with AlphaFold 3

Nature (London), 2024-06, Vol.630 (8016), p.493-500

2024

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Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water

Science (American Association for the Advancement of Science), 2017-10, Vol.358 (6360), p.238-241

2017

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On the Interpretation of Force-Induced Unfolding Studies of Membrane Proteins Using Fast Simulations

Biophysical journal, 2019-10, Vol.117 (8), p.1429-1441

2019

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Free-Standing Kinked Silicon Nanowires for Probing Inter- and Intracellular Force Dynamics

Nano letters, 2015-08, Vol.15 (8), p.5492-5498

2015

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A Membrane Burial Potential with H-Bonds and Applications to Curved Membranes and Fast Simulations

Biophysical journal, 2018-11, Vol.115 (10), p.1872-1884

2018

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Rotational Relaxation in ortho-Terphenyl: Using Atomistic Simulations to Bridge Theory and Experiment

The journal of physical chemistry. B, 2013-10, Vol.117 (42), p.12898-12907

2013

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Upside: A New Dynamics Methods Capable of Cooperative De Novo Protein Folding in CPU-Hours

Biophysical journal, 2018-02, Vol.114 (3), p.677a-677a

2018

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Upside: Protein Folding in CPU-Hours with Applications to Force-Unfolding of Membrane Proteins

Biophysical journal, 2020-02, Vol.118 (3), p.353a-353a

2020

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Fast, Atomic-Level AFM and Magnetic Tweezers Simulations of the Unfolding of Membrane Proteins using a New Membrane Burial Potential with H-Bonding

Biophysical journal, 2019-02, Vol.116 (3), p.300a-301a

2019

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Upside: A New Dynamics Method Capable of Cooperative De Novo Protein Folding in CPU-Hours

Biophysical journal, 2016-02, Vol.110 (3), p.523a-524a

2016

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Molecular Determinants of Specificity in the Dpr-DIP Interaction Network

Biophysical journal, 2017-02, Vol.112 (3), p.53a-53a

2017

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Including H-Bonding in Depth-Dependent Membrane Burial Potentials for Improving Folding Simulations

Biophysical journal, 2016-02, Vol.110 (3), p.58a-58a

2016

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Measuring the solvent quality of water for disordered proteins from a single SAXS measurement

Acta crystallographica. Section A, Foundations and advances, 2018-07, Vol.74 (a1), p.a221-a221

2018

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New Methods Using Rigorous Machine Learning for Coarse-Grained Protein Folding and Dynamics

Jumper, John M

2017

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Anti-VEGF treatment of diabetic macular edema in clinical practice: effectiveness and patterns of use (ECHO Study Report 1)

Clinical ophthalmology (Auckland, N.Z.), 2017-01, Vol.11, p.393-401

2017

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Structure of the decoy module of human glycoprotein 2 and uromodulin and its interaction with bacterial adhesin FimH

Nature structural & molecular biology, 2022, Vol.29 (3), p.190-193

2022

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Discovery of archaeal fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteins

Nature communications, 2022-07, Vol.13 (1), p.3880-18, Article 3880

2022

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Barriers to accrual and enrollment in brain tumor trials

Neuro-oncology (Charlottesville, Va.), 2019-09, Vol.21 (9), p.1100-1117

2019

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Association of Maximal Extent of Resection of Contrast-Enhanced and Non-Contrast-Enhanced Tumor With Survival Within Molecular Subgroups of Patients With Newly Diagnosed Glioblastoma

JAMA oncology, 2020-04, Vol.6 (4), p.495

2020

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Do social determinants of health impact access to neurosurgical care in the United States? A workforce perspective

Journal of neurosurgery, 2022-09, Vol.137 (3), p.1-876

2022

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Atomic-Level Characterization of the Structural Dynamics of Proteins

Loss of conformational entropy in protein folding calculated using realistic ensembles and its implications for NMR-based calculations

Accurate calculation of side chain packing and free energy with applications to protein molecular dynamics

Trajectory-based training enables protein simulations with accurate folding and Boltzmann ensembles in cpu-hours

Accurate structure prediction of biomolecular interactions with AlphaFold 3

Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water

On the Interpretation of Force-Induced Unfolding Studies of Membrane Proteins Using Fast Simulations

Free-Standing Kinked Silicon Nanowires for Probing Inter- and Intracellular Force Dynamics

A Membrane Burial Potential with H-Bonds and Applications to Curved Membranes and Fast Simulations

Rotational Relaxation in ortho-Terphenyl: Using Atomistic Simulations to Bridge Theory and Experiment

Upside: A New Dynamics Methods Capable of Cooperative De Novo Protein Folding in CPU-Hours

Upside: Protein Folding in CPU-Hours with Applications to Force-Unfolding of Membrane Proteins

Fast, Atomic-Level AFM and Magnetic Tweezers Simulations of the Unfolding of Membrane Proteins using a New Membrane Burial Potential with H-Bonding

Upside: A New Dynamics Method Capable of Cooperative De Novo Protein Folding in CPU-Hours

Molecular Determinants of Specificity in the Dpr-DIP Interaction Network

Including H-Bonding in Depth-Dependent Membrane Burial Potentials for Improving Folding Simulations

Measuring the solvent quality of water for disordered proteins from a single SAXS measurement

New Methods Using Rigorous Machine Learning for Coarse-Grained Protein Folding and Dynamics

Interactive Effects of Molecular, Therapeutic, and Patient Factors on Outcome of Diffuse Low-Grade Glioma

Anti-VEGF treatment of diabetic macular edema in clinical practice: effectiveness and patterns of use (ECHO Study Report 1)

Structure of the decoy module of human glycoprotein 2 and uromodulin and its interaction with bacterial adhesin FimH

Discovery of archaeal fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteins

Barriers to accrual and enrollment in brain tumor trials

Association of Maximal Extent of Resection of Contrast-Enhanced and Non-Contrast-Enhanced Tumor With Survival Within Molecular Subgroups of Patients With Newly Diagnosed Glioblastoma

Do social determinants of health impact access to neurosurgical care in the United States? A workforce perspective

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