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Feedback traps for virtual potentials 期刊论文
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES, 2017, 卷号: 375, 期号: 2088, 页码: 20160217
Authors:  Gavrilov, M;  Bechhoefer, J;  Bechhoefer, J (reprint author), Simon Fraser Univ, Dept Phys, Burnaby, BC V5A 1S6, Canada.;  Bechhoefer, J (reprint author), Kavli Inst Theoret Phys China CAS, Beijing 100190, Peoples R China.
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Feedback Trap  Information Engine  Landauer Limit  Maxwell Demon  Optimal Control  Stochastic Work  
Molecular dynamics simulation study of the "stay or leave" problem for two magnesium ions in gene transcription 期刊论文
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2017, 卷号: 85, 期号: 6, 页码: 1002-1007
Authors:  Wu, SG;  Wu, SG (reprint author), Sichuan Normal Univ, Coll Chem & Mat Sci, Chengdu 610066, Peoples R China.
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Molecular Dynamics Simulation  T7 Rna Polymerase  Magnesium Ion  Transcription Mechanism  Free Energy  
Mechanism of NTP Binding to the Active Site of T7 RNA Polymerase Revealed by Free-Energy Simulation 期刊论文
BIOPHYSICAL JOURNAL, 2017, 卷号: 112, 期号: 11, 页码: 2253-2260
Authors:  Wu, SG;  Li, LC;  Li, Q;  Wu, SG (reprint author), Sichuan Normal Univ, Coll Chem & Mat Sci, Chengdu, Peoples R China.;  Wu, SG (reprint author), Chinese Acad Sci, Inst Theoret Phys, State Key Lab Theoret Phys, Beijing, Peoples R China.
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On the relevance of the maximum entropy principle in non-equilibrium statistical mechanics 期刊论文
EUROPEAN PHYSICAL JOURNAL-SPECIAL TOPICS, 2017, 卷号: 226, 期号: 10, 页码: 2327-2343
Authors:  Auletta, G;  Rondoni, L;  Vulpiani, A;  Auletta, G (reprint author), Univ Cassino, I-03043 Cassino, Italy.
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Anisotropic formation mechanism and nanomechanics for the self-assembly process of cross-beta peptides 期刊论文
CHINESE PHYSICS B, 2017, 卷号: 26, 期号: 12, 页码: 128701
Authors:  Deng, L;  Zhao, YR;  Zhou, P;  Xu, H;  Wang, YT
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Steered Molecular-dynamics  Atomic-force Microscopy  Particle Mesh Ewald  Amyloid Fibrils  Free-energy  Intermolecular Forces  Monte-carlo  Nanotubes  Systems  Simulations  
Modulation of intra- and inter-sheet interactions in short peptide self-assembly by acetonitrile in aqueous solution 期刊论文
CHINESE PHYSICS B, 2016, 卷号: 25, 期号: 12, 页码: 128704
Authors:  Deng, L;  Zhao, YR;  Zhou, P;  Xu, H;  Wang, YT;  Xu, H (reprint author), China Univ Petr East China, Ctr Bioengn & Biotechnol, Qingdao 266580, Peoples R China.;  Wang, YT (reprint author), Chinese Acad Sci, Inst Theoret Phys, Key Lab Theoret Phys, Beijing 100190, Peoples R China.;  Wang, YT (reprint author), Univ Chinese Acad Sci, Sch Phys Sci, Beijing 100049, Peoples R China.
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Solvent Effect  Peptide Self-assembly  Molecular Dynamics Simulation  
Different nanostructures caused by competition of intra- and inter-beta-sheet interactions in hierarchical self-assembly of short peptides 期刊论文
JOURNAL OF COLLOID AND INTERFACE SCIENCE, 2016, 卷号: 464, 页码: 219-228
Authors:  Zhou, P;  Deng, L;  Wang, YT;  Lu, JR;  Xu, H;  Wang, YT (reprint author), Chinese Acad Sci, Inst Theoret Phys, State Key Lab Theoret Phys, 55 East Zhongguancun Road,POB 2735, Beijing 100190, Peoples R China.
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Short Peptides  Self-assembly  Nanostructures  Intermolecular Interactions  Molecular Packing Modes  Molecular Dynamics  
Jarzynski matrix equality: Calculating the free-energy difference by nonequilibrium simulations with an arbitrary initial distribution 期刊论文
PHYSICAL REVIEW E, 2016, 卷号: 93, 期号: 4, 页码: 43312
Authors:  Wan, B;  Yang, C;  Wang, YT;  Zhou, X;  Zhou, X (reprint author), Univ Chinese Acad Sci, Sch Phys Sci, Beijing 100049, Peoples R China.
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Systematically Constructing Kinetic Transition Network in Polypeptide from Top to Down: Trajectory Mapping 期刊论文
PLOS ONE, 2015, 卷号: 10, 期号: 5, 页码: UNSP e0125932
Authors:  Gong, LC;  Zhou, X;  Ouyang, ZC;  Zhou, X (reprint author), Univ Chinese Acad Sci, Sch Phys, Beijing 100049, Peoples R China.
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Molecular Origin of the Self-Assembled Morphological Difference Caused by Varying the Order of Charged Residues in Short Peptides 期刊论文
JOURNAL OF PHYSICAL CHEMISTRY B, 2014, 卷号: 118, 期号: 43, 页码: 12501-12510
Authors:  Deng, L;  Zhou, P;  Zhao, YR;  Wang, YT;  Xu, H;  Wang, YT (reprint author), Chinese Acad Sci, State Key Lab Theoret Phys, Inst Theoret Phys, 55 East Zhongguancun Rd,POB 2735, Beijing 100190, Peoples R China.
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Particle Mesh Ewald  Amyloid Fibril  Alzheimers-disease  Dynamics Method  Biomolecules  Simulations  Systems  Conformations  Distributions  Transitions