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Alexander Dickson, Ph.D. - Publications

Affiliations: 
Chemistry Michigan State University, East Lansing, MI 
Area:
theoretical studies of cellular behavior
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25 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Donyapour N, Roussey NM, Dickson A. REVO: Resampling of ensembles by variation optimization. The Journal of Chemical Physics. 150: 244112. PMID 31255090 DOI: 10.1063/1.5100521  0.33
2019 Bai N, Roder H, Dickson A, Karanicolas J. Isothermal Analysis of ThermoFluor Data can readily provide Quantitative Binding Affinities. Scientific Reports. 9: 2650. PMID 30804351 DOI: 10.1038/S41598-018-37072-X  0.562
2016 Dickson A, Bailey CT, Karanicolas J. Optimal allosteric stabilization sites using contact stabilization analysis. Journal of Computational Chemistry. PMID 27774625 DOI: 10.1002/Jcc.24517  0.575
2016 Salmon L, Ahlstrom LS, Horowitz S, Dickson A, Brooks CL, Bardwell JC. Capturing a dynamic chaperone-substrate interaction using NMR-informed molecular modeling. Journal of the American Chemical Society. PMID 27415450 DOI: 10.1021/Jacs.6B02382  0.444
2016 Ahlstrom LS, Salmon L, Horowitz S, Dickson A, Brooks CL, Bardwell JC. NMR-Informed Molecular Modeling Uncovers the Conformational Landscape of Chaperone Binding with Unfolded Substrate Biophysical Journal. 110: 369a. DOI: 10.1016/J.Bpj.2015.11.1989  0.461
2015 Dickson A, Ahlstrom LS, Brooks CL. Coupled folding and binding with 2D Window-Exchange Umbrella Sampling. Journal of Computational Chemistry. PMID 26250657 DOI: 10.1002/Jcc.24004  0.525
2015 Laricheva EN, Goh GB, Dickson A, Brooks CL. pH-dependent transient conformational states control optical properties in cyan fluorescent protein. Journal of the American Chemical Society. 137: 2892-900. PMID 25647152 DOI: 10.1021/Ja509233R  0.454
2015 Ahlstrom LS, Law SM, Dickson A, Brooks CL. Multiscale modeling of a conditionally disordered pH-sensing chaperone. Journal of Molecular Biology. 427: 1670-80. PMID 25584862 DOI: 10.1016/J.Jmb.2015.01.002  0.674
2015 Ahlstrom LS, Law SM, Dickson A, Brooks CL. A Multiscale Model for pH-Dependent Folding and Binding of a Conditionally Disordered Chaperone Biophysical Journal. 108: 347a. DOI: 10.1016/J.Bpj.2014.11.1900  0.682
2015 Dickson A, Ahlstrom LS, Brooks CL. Coupled folding and binding with 2D Window-Exchange Umbrella Sampling Journal of Computational Chemistry. DOI: 10.1002/jcc.24004  0.427
2014 Dickson A, Mustoe AM, Salmon L, Brooks CL. Efficient in silico exploration of RNA interhelical conformations using Euler angles and WExplore. Nucleic Acids Research. 42: 12126-37. PMID 25294827 DOI: 10.1093/Nar/Gku799  0.461
2014 Dickson A, Brooks CL. WExplore: hierarchical exploration of high-dimensional spaces using the weighted ensemble algorithm. The Journal of Physical Chemistry. B. 118: 3532-42. PMID 24490961 DOI: 10.1021/Jp411479C  0.468
2013 Dickson A, Brooks CL. Quantifying chaperone-mediated transitions in the proteostasis network of E. coli. Plos Computational Biology. 9: e1003324. PMID 24244134 DOI: 10.1371/Journal.Pcbi.1003324  0.425
2013 Ahlstrom LS, Dickson A, Brooks CL. Binding and folding of the small bacterial chaperone HdeA. The Journal of Physical Chemistry. B. 117: 13219-25. PMID 23738772 DOI: 10.1021/Jp403264S  0.445
2013 Dickson A, Brooks CL. Native states of fast-folding proteins are kinetic traps. Journal of the American Chemical Society. 135: 4729-34. PMID 23458553 DOI: 10.1021/Ja311077U  0.469
2012 Dickson A, Brooks CL. Quantifying hub-like behavior in protein folding networks. Journal of Chemical Theory and Computation. 8: 3044-3052. PMID 24027492 DOI: 10.1021/Ct300537S  0.476
2012 Dickson A, Warmflash A, Dinner AR. Erratum: “Separating forward and backward pathways in nonequilibrium umbrella sampling” [J. Chem. Phys. 131, 154104 (2009)] The Journal of Chemical Physics. 136: 239901. DOI: 10.1063/1.4730937  0.651
2012 Dickson A, Warmflash A, Dinner AR. Erratum: “Nonequilibrium umbrella sampling in spaces of many order parameters” [J. Chem. Phys. 130, 074104 (2009)] The Journal of Chemical Physics. 136: 229901. DOI: 10.1063/1.4729744  0.688
2011 Dickson A, Maienschein-Cline M, Tovo-Dwyer A, Hammond JR, Dinner AR. Flow-Dependent Unfolding and Refolding of an RNA by Nonequilibrium Umbrella Sampling. Journal of Chemical Theory and Computation. 7: 2710-2720. PMID 26605464 DOI: 10.1021/Ct200371N  0.701
2011 Dickson A, Tabei SM, Dinner AR. Entrainment of a driven oscillator as a dynamical phase transition. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 84: 061134. PMID 22304067 DOI: 10.1103/Physreve.84.061134  0.706
2011 Dickson A, Maienschein-Cline M, Tovo-Dwyer A, Hammond JR, Dinner AR. Flow-dependent unfolding and refolding of an RNA by nonequilibrium umbrella sampling Journal of Chemical Theory and Computation. 7: 2710-2720. DOI: 10.1021/ct200371n  0.649
2010 Dickson A, Nasto A, Dinner AR. Incorporating friction and collective shear moves into a lattice gas. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 81: 051111. PMID 20866189 DOI: 10.1103/Physreve.81.051111  0.486
2010 Dickson A, Dinner AR. Enhanced sampling of nonequilibrium steady states. Annual Review of Physical Chemistry. 61: 441-59. PMID 20367083 DOI: 10.1146/Annurev.Physchem.012809.103433  0.59
2009 Dickson A, Warmflash A, Dinner AR. Separating forward and backward pathways in nonequilibrium umbrella sampling. The Journal of Chemical Physics. 131: 154104. PMID 20568844 DOI: 10.1063/1.3244561  0.719
2009 Dickson A, Warmflash A, Dinner AR. Nonequilibrium umbrella sampling in spaces of many order parameters. The Journal of Chemical Physics. 130: 074104. PMID 19239281 DOI: 10.1063/1.3070677  0.707
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