Recurrence quantification analysis as a tool for characterization of molecular dynamics simulations

Cesare Manetti; Marc-Antoine Ceruso; Alessandro Giuliani; Charles L. Webber; Joseph P. Zbilut

doi:10.1103/physreve.59.992

Recurrence quantification analysis as a tool for characterization of molecular dynamics simulations

Physical Review E ◽

10.1103/physreve.59.992 ◽

1999 ◽

Vol 59 (1) ◽

pp. 992-998 ◽

Cited By ~ 48

Author(s):

Cesare Manetti ◽

Marc-Antoine Ceruso ◽

Alessandro Giuliani ◽

Charles L. Webber ◽

Joseph P. Zbilut

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Recurrence Quantification Analysis ◽

Recurrence Quantification ◽

Quantification Analysis ◽

Dynamics Simulations

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System dynamics revealed by recurrence quantification analysis: Application to molecular dynamics simulations

Physical Review E ◽

10.1103/physreve.76.021120 ◽

2007 ◽

Vol 76 (2) ◽

Cited By ~ 13

Author(s):

T. E. Karakasidis ◽

A. Fragkou ◽

A. Liakopoulos

Keyword(s):

Molecular Dynamics ◽

System Dynamics ◽

Molecular Dynamics Simulations ◽

Recurrence Quantification Analysis ◽

Recurrence Quantification ◽

Quantification Analysis ◽

Analysis Application ◽

Dynamics Simulations

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Structural Characterization of FeO–SiO2–V2O3 Slags Using Molecular Dynamics Simulations and FT-IR Spectroscopy

ISIJ International ◽

10.2355/isijinternational.isijint-2015-600 ◽

2016 ◽

Vol 56 (5) ◽

pp. 828-834 ◽

Cited By ~ 10

Author(s):

Zhen Zhang ◽

Bing Xie ◽

Wang Zhou ◽

Jiang Diao ◽

Hong-Yi Li

Keyword(s):

Molecular Dynamics ◽

Ir Spectroscopy ◽

Molecular Dynamics Simulations ◽

Structural Characterization ◽

Ft Ir ◽

Dynamics Simulations ◽

Ft Ir Spectroscopy

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Characterization of amorphous Si generated through classical molecular dynamics simulations

2017 Spanish Conference on Electron Devices (CDE) ◽

10.1109/cde.2017.7905213 ◽

2017 ◽

Author(s):

Ivan Santos ◽

Pedro Lopez ◽

Maria Aboy ◽

Luis A. Marques ◽

Lourdes Pelaz

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Classical Molecular Dynamics ◽

Amorphous Si ◽

Dynamics Simulations

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Atomic scale characterization of interfacial water near an oxide surface using molecular dynamics simulations

Physical Chemistry Chemical Physics ◽

10.1039/c2cp42308a ◽

2012 ◽

Vol 14 (44) ◽

pp. 15593 ◽

Cited By ~ 21

Author(s):

Sanket A. Deshmukh ◽

Subramanian K. R. S. Sankaranarayanan

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Atomic Scale ◽

Oxide Surface ◽

Interfacial Water ◽

Scale Characterization ◽

Dynamics Simulations

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Characterization of a Catalytic Ligand Bridging Metal Ions in Phosphodiesterases 4 and 5 by Molecular Dynamics Simulations and Hybrid Quantum Mechanical/Molecular Mechanical Calculations

Biophysical Journal ◽

10.1529/biophysj.106.086835 ◽

2006 ◽

Vol 91 (5) ◽

pp. 1858-1867 ◽

Cited By ~ 32

Author(s):

Ying Xiong ◽

Hai-Ting Lu ◽

Yongjian Li ◽

Guang-Fu Yang ◽

Chang-Guo Zhan

Keyword(s):

Molecular Dynamics ◽

Metal Ions ◽

Molecular Dynamics Simulations ◽

Quantum Mechanical ◽

Dynamics Simulations

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Structural characterization of the H2O/CCl4 liquid interface using molecular dynamics simulations

Surface and Colloid Science ◽

10.1007/b97086 ◽

2004 ◽

pp. 81-85 ◽

Cited By ~ 1

Author(s):

N. H. Moreira ◽

M. S. Skaf

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Structural Characterization ◽

Liquid Interface ◽

Dynamics Simulations

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Thermodynamic and kinetic characterization of a β-hairpin peptide in solution: An extended phase space sampling by molecular dynamics simulations in explicit water

Proteins Structure Function and Bioinformatics ◽

10.1002/prot.20427 ◽

2005 ◽

Vol 59 (3) ◽

pp. 510-518 ◽

Cited By ~ 37

Author(s):

Isabella Daidone ◽

Andrea Amadei ◽

Alfredo Di Nola

Keyword(s):

Molecular Dynamics ◽

Phase Space ◽

Molecular Dynamics Simulations ◽

Extended Phase Space ◽

Kinetic Characterization ◽

Extended Phase ◽

Dynamics Simulations ◽

Explicit Water

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Recurrence quantification analysis with wavelet denoising and the characterization of magnetic flux emergence regions in solar photosphere

Physical Review E ◽

10.1103/physreve.100.012217 ◽

2019 ◽

Vol 100 (1) ◽

Author(s):

B. M. F. Reis ◽

J. M. Rodríguez Gómez ◽

T. S. N. Pinto ◽

T. R. C. Stekel ◽

L. A. Magrini ◽

...

Keyword(s):

Magnetic Flux ◽

Wavelet Denoising ◽

Recurrence Quantification Analysis ◽

Solar Photosphere ◽

Flux Emergence ◽

Recurrence Quantification ◽

Quantification Analysis

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Characterization of a Novel Glutelin Subunit OsGluBX by the Experimental Approach and Molecular Dynamics Simulations

Applied Biochemistry and Biotechnology ◽

10.1007/s12010-012-0058-1 ◽

2013 ◽

Vol 169 (5) ◽

pp. 1482-1496 ◽

Cited By ~ 3

Author(s):

Ying He ◽

Yubo Zhang ◽

Shuzhen Wang ◽

Hanlai Zeng ◽

Yi Ding

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Experimental Approach ◽

Dynamics Simulations

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Characterization of RNA Nano Design Structures by Steered Molecular Dynamics Simulations Approach

Biophysical Journal ◽

10.1016/j.bpj.2009.12.4162 ◽

2010 ◽

Vol 98 (3) ◽

pp. 758a

Author(s):

Taejin Kim ◽

Victor E. Marquez ◽

Bruce A. Shapiro

Keyword(s):

Molecular Dynamics ◽

Molecular Dynamics Simulations ◽

Steered Molecular Dynamics ◽

Dynamics Simulations

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