Следене
Alex Dickson
Alex Dickson
Associate Professor, Department of Biochemistry & Molecular Biology, Michigan State University
Потвърден имейл адрес: msu.edu - Начална страница
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Позовавания
Позовавания
Година
A suite of tutorials for the WESTPA rare-events sampling software [Article v1. 0]
AT Bogetti, B Mostofian, A Dickson, AJ Pratt, AS Saglam, PO Harrison, ...
Living journal of computational molecular science 1 (2), 10607, 2019
8612019
Isothermal analysis of ThermoFluor data can readily provide quantitative binding affinities
N Bai, H Roder, A Dickson, J Karanicolas
Scientific reports 9 (1), 2650, 2019
1542019
Unbiased molecular dynamics of 11 min timescale drug unbinding reveals transition state stabilizing interactions
SD Lotz, A Dickson
Journal of the American Chemical Society 140 (2), 618-628, 2018
1342018
WExplore: Hierarchical Exploration of High-Dimensional Spaces Using the Weighted Ensemble Algorithm
A Dickson, CL Brooks III
Journal of Physical Chemistry B, 2014
1182014
The SAMPL6 SAMPLing challenge: assessing the reliability and efficiency of binding free energy calculations
A Rizzi, T Jensen, DR Slochower, M Aldeghi, V Gapsys, D Ntekoumes, ...
Journal of computer-aided molecular design 34 (5), 601-633, 2020
1152020
Enhanced sampling of nonequilibrium steady states
A Dickson, AR Dinner
Annual review of physical chemistry 61 (1), 441-459, 2010
1032010
Nonequilibrium umbrella sampling in spaces of many order parameters
A Dickson, A Warmflash, AR Dinner
The Journal of chemical physics 130 (7), 2009
942009
Multiple ligand unbinding pathways and ligand-induced destabilization revealed by WExplore
A Dickson, SD Lotz
Biophysical journal 112 (4), 620-629, 2017
922017
Separating forward and backward pathways in nonequilibrium umbrella sampling
A Dickson, A Warmflash, AR Dinner
The Journal of chemical physics 131 (15), 2009
862009
Ligand release pathways obtained with WExplore: residence times and mechanisms
A Dickson, SD Lotz
The Journal of Physical Chemistry B 120 (24), 5377-5385, 2016
622016
REVO: Resampling of ensembles by variation optimization
N Donyapour, NM Roussey, A Dickson
The Journal of chemical physics 150 (24), 2019
612019
Predicting the structural basis of targeted protein degradation by integrating molecular dynamics simulations with structural mass spectrometry
T Dixon, D MacPherson, B Mostofian, T Dauzhenka, S Lotz, D McGee, ...
Nature communications 13 (1), 5884, 2022
552022
Native states of fast-folding proteins are kinetic traps
A Dickson, CL Brooks III
Journal of the American Chemical Society 135 (12), 4729-4734, 2013
552013
Kinetics of ligand binding through advanced computational approaches: a review
A Dickson, P Tiwary, H Vashisth
Current topics in medicinal chemistry 17 (23), 2626-2641, 2017
532017
Mapping the Ligand Binding Landscape
A Dickson
Biophysical Journal 115 (9), 1707-1719, 2018
492018
Flow-dependent unfolding and refolding of an RNA by nonequilibrium umbrella sampling
A Dickson, M Maienschein-Cline, A Tovo-Dwyer, JR Hammond, ...
Journal of Chemical Theory and Computation 7 (9), 2710-2720, 2011
462011
On calculating free energy differences using ensembles of transition paths
R Hall, T Dixon, A Dickson
Frontiers in molecular biosciences 7, 106, 2020
452020
Predicting ligand binding affinity using on-and off-rates for the SAMPL6 SAMPLing challenge
T Dixon, SD Lotz, A Dickson
Journal of computer-aided molecular design 32 (10), 1001-1012, 2018
442018
A biosensor-based framework to measure latent proteostasis capacity
RJ Wood, AR Ormsby, M Radwan, D Cox, A Sharma, T Vöpel, ...
Nature communications 9 (1), 287, 2018
442018
Membrane-mediated ligand unbinding of the PK-11195 ligand from TSPO
T Dixon, A Uyar, S Ferguson-Miller, A Dickson
Biophysical journal 120 (1), 158-167, 2021
392021
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