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Hugh Nymeyer - Publications

Affiliations: 
2001 University of California, San Diego, La Jolla, CA 
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19 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
2009 Nymeyer H. Energy landscape of the trpzip2 peptide. The Journal of Physical Chemistry. B. 113: 8288-95. PMID 19469524 DOI: 10.1021/Jp806749B  0.493
2008 Nymeyer H. How Efficient Is Replica Exchange Molecular Dynamics? An Analytic Approach. Journal of Chemical Theory and Computation. 4: 626-36. PMID 26620937 DOI: 10.1021/Ct7003337  0.44
2008 Nymeyer H, Zhou HX. A method to determine dielectric constants in nonhomogeneous systems: application to biological membranes. Biophysical Journal. 94: 1185-93. PMID 17951302 DOI: 10.1529/Biophysj.107.117770  0.34
2008 Boone MA, Nymeyer H, Striegel AM. Determining the solution conformational entropy of O-linked oligosaccharides at quasi-physiological conditions: size-exclusion chromatography and molecular dynamics. Carbohydrate Research. 343: 132-8. PMID 17950712 DOI: 10.1016/J.Carres.2007.09.010  0.368
2008 Yang W, Nymeyer H, Zhou HX, Berg B, Brüschweiler R. Quantitative computer simulations of biomolecules: a snapshot. Journal of Computational Chemistry. 29: 668-72. PMID 17708535 DOI: 10.1002/Jcc.20819  0.431
2007 Paschek D, Nymeyer H, García AE. Replica exchange simulation of reversible folding/unfolding of the Trp-cage miniprotein in explicit solvent: on the structure and possible role of internal water. Journal of Structural Biology. 157: 524-33. PMID 17293125 DOI: 10.1016/J.Jsb.2006.10.031  0.516
2007 Ji L, Nymeyer H, Srinivasan A, Yu Y. Data-driven time-parallelization in the AFM simulation of proteins Proceedings - 21st International Parallel and Distributed Processing Symposium, Ipdps 2007; Abstracts and Cd-Rom. DOI: 10.1109/IPDPS.2007.370450  0.302
2007 Ji L, Nymeyer H, Srinivasan A, Yu Y. Data-driven time-parallelization in the AFM simulation of proteins Proceedings - 21st International Parallel and Distributed Processing Symposium, Ipdps 2007; Abstracts and Cd-Rom. DOI: 10.1109/IPDPS.2007.370450  0.302
2005 Nymeyer H, Woolf TB, Garcia AE. Folding is not required for bilayer insertion: replica exchange simulations of an alpha-helical peptide with an explicit lipid bilayer. Proteins. 59: 783-90. PMID 15828005 DOI: 10.1002/Prot.20460  0.411
2004 Nymeyer H, Gnanakaran S, García AE. Atomic simulations of protein folding, using the replica exchange algorithm. Methods in Enzymology. 383: 119-49. PMID 15063649 DOI: 10.1016/S0076-6879(04)83006-4  0.449
2003 Nymeyer H, García AE. Simulation of the folding equilibrium of alpha-helical peptides: a comparison of the generalized Born approximation with explicit solvent. Proceedings of the National Academy of Sciences of the United States of America. 100: 13934-9. PMID 14617775 DOI: 10.1073/Pnas.2232868100  0.408
2003 Gnanakaran S, Nymeyer H, Portman J, Sanbonmatsu KY, García AE. Peptide folding simulations. Current Opinion in Structural Biology. 13: 168-74. PMID 12727509 DOI: 10.1016/S0959-440X(03)00040-X  0.356
2002 Chahine J, Nymeyer H, Leite VB, Socci ND, Onuchic JN. Specific and nonspecific collapse in protein folding funnels. Physical Review Letters. 88: 168101. PMID 11955268 DOI: 10.1103/Physrevlett.88.168101  0.582
2000 Clementi C, Nymeyer H, Onuchic JN. Topological and energetic factors: what determines the structural details of the transition state ensemble and "en-route" intermediates for protein folding? An investigation for small globular proteins. Journal of Molecular Biology. 298: 937-53. PMID 10801360 DOI: 10.1006/Jmbi.2000.3693  0.652
2000 Onuchic JN, Nymeyer H, García AE, Chahine J, Socci ND. The energy landscape theory of protein folding: insights into folding mechanisms and scenarios. Advances in Protein Chemistry. 53: 87-152. PMID 10751944 DOI: 10.1016/S0065-3233(00)53003-4  0.644
2000 Nymeyer H, Socci ND, Onuchic JN. Landscape approaches for determining the ensemble of folding transition states: success and failure hinge on the degree of frustration. Proceedings of the National Academy of Sciences of the United States of America. 97: 634-9. PMID 10639131 DOI: 10.1073/Pnas.97.2.634  0.626
1998 Nymeyer H, García AE, Onuchic JN. Folding funnels and frustration in off-lattice minimalist protein landscapes. Proceedings of the National Academy of Sciences of the United States of America. 95: 5921-8. PMID 9600893 DOI: 10.1073/Pnas.95.11.5921  0.622
1997 Socci ND, Nymeyer H, Onuchic JN. Exploring the protein folding funnel landscape Physica D: Nonlinear Phenomena. 107: 366-382. DOI: 10.1016/S0167-2789(97)00105-X  0.609
1997 Socci ND, Nymeyer H, Onuchic JN. Exploring the protein folding funnel landscape Physica D: Nonlinear Phenomena. 107: 366-382.  0.466
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