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Volumn 140, Issue 13, 2014, Pages

Conservative and dissipative force field for simulation of coarse-grained alkane molecules: A bottom-up approach

Author keywords

[No Author keywords available]

Indexed keywords

FRICTION; MOLECULAR DYNAMICS; MOLECULES;

EID: 84897991447     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.4870394     Document Type: Article
Times cited : (43)

References (36)
  • 1
    • 84950109965 scopus 로고
    • Simulating microscopic phenomena with dissipative particle dynamics
    • 10.1209/0295-5075/19/3/001
    • P. J. Hoogerbrugge and J. M. V. A. Koelman, " Simulating microscopic phenomena with dissipative particle dynamics," Europhys. Lett. 19, 155-160 (1992). 10.1209/0295-5075/19/3/001
    • (1992) Europhys. Lett. , vol.19 , pp. 155-160
    • Hoogerbrugge, P.J.1    Koelman, J.M.V.A.2
  • 2
    • 5544242655 scopus 로고    scopus 로고
    • Dissipative particle dynamics: Bridging the gap between atomistic and mesoscopic simulation
    • 10.1063/1.474784
    • R. Groot and P. Warren, " Dissipative particle dynamics: Bridging the gap between atomistic and mesoscopic simulation," J. Chem. Phys. 107, 4423-4435 (1997). 10.1063/1.474784
    • (1997) J. Chem. Phys. , vol.107 , pp. 4423-4435
    • Groot, R.1    Warren, P.2
  • 4
    • 62349117444 scopus 로고    scopus 로고
    • Effective control of the transport coefficients of a coarse-grained liquid and polymer models using the dissipative particle dynamics and LoweAndersen equations of motion
    • 10.1039/b817584e
    • H. J. Qian, C. C. Liew, and F. Müller-Plathe, " Effective control of the transport coefficients of a coarse-grained liquid and polymer models using the dissipative particle dynamics and LoweAndersen equations of motion," Phys. Chem. Chem. Phys. 11 (12), 1962-1969 (2009). 10.1039/b817584e
    • (2009) Phys. Chem. Chem. Phys. , vol.11 , Issue.12 , pp. 1962-1969
    • Qian, H.J.1    Liew, C.C.2    Müller-Plathe, F.3
  • 5
    • 0000514837 scopus 로고
    • Transport, collective motion and brownian motion
    • 10.1143/PTP.33.423
    • H. Mori, " Transport, collective motion and brownian motion," Prog. Theor. Phys. 33, 423-455 (1965). 10.1143/PTP.33.423
    • (1965) Prog. Theor. Phys. , vol.33 , pp. 423-455
    • Mori, H.1
  • 6
    • 0037787230 scopus 로고
    • Ensemble method in the theory of irreversibility
    • 10.1063/1.1731409
    • R. Zwanzig, " Ensemble method in the theory of irreversibility, " J. Chem. Phys. 33, 1338 (1960). 10.1063/1.1731409
    • (1960) J. Chem. Phys. , vol.33 , pp. 1338
    • Zwanzig, R.1
  • 7
    • 36549102936 scopus 로고
    • Microscopic theory of the dynamics of polymeric liquids: General formulation of a mode-mode-coupling approach
    • 10.1063/1.457533
    • K. S. Schweizer, " Microscopic theory of the dynamics of polymeric liquids: General formulation of a mode-mode-coupling approach," J. Chem. Phys. 91, 5802-5821 (1989). 10.1063/1.457533
    • (1989) J. Chem. Phys. , vol.91 , pp. 5802-5821
    • Schweizer, K.S.1
  • 8
    • 0034294329 scopus 로고    scopus 로고
    • Coarse-grained dynamics of one chain in a polymer melt
    • 10.1063/1.1308513
    • R. Akkermans and W. Briels, " Coarse-grained dynamics of one chain in a polymer melt," J. Chem. Phys. 113, 6409-6422 (2000). 10.1063/1.1308513
    • (2000) J. Chem. Phys. , vol.113 , pp. 6409-6422
    • Akkermans, R.1    Briels, W.2
  • 9
    • 34347230979 scopus 로고    scopus 로고
    • Equation of motion for coarse-grained simulation based on microscopic description
    • 10.1103/PhysRevE.75.051109
    • T. Kinjo and S.-A. Hyodo, " Equation of motion for coarse-grained simulation based on microscopic description," Phys. Rev. E 75, 051109 (2007). 10.1103/PhysRevE.75.051109
    • (2007) Phys. Rev. e , vol.75 , pp. 051109
    • Kinjo, T.1    Hyodo, S.-A.2
  • 11
    • 0347350061 scopus 로고    scopus 로고
    • Coarse-graining of a fluid and its relation with dissipative particle dynamics and smoothed particle dynamics
    • 10.1142/S0129183197000771
    • P. Español, M. Serrano, and I. Zúñiga, " Coarse-graining of a fluid and its relation with dissipative particle dynamics and smoothed particle dynamics," Int. J. Modern Phys. C 08, 899-908 (1997). 10.1142/S0129183197000771
    • (1997) Int. J. Modern Phys. C , vol.8 , pp. 899-908
    • Español, P.1    Serrano, M.2    Zúñiga, I.3
  • 12
    • 0032003667 scopus 로고    scopus 로고
    • Simulation of polymer melt. I. Coarse-graining procedure for polycarbonates
    • 10.1002/ (SICI) 1521-4044 (199802) 49:2/3<61::AID-APOL61>3.0.CO;2-V
    • W. Tschöp, K. Kremer, J. Batoulis, T. Bürger, and O. Hahn, " Simulation of polymer melt. I. Coarse-graining procedure for polycarbonates," Acta Polym. 49, 61-74 (1998). 10.1002/(SICI)1521- 4044(199802)49:2/3<61::AID-APOL61>3.0.CO;2-V
    • (1998) Acta Polym. , vol.49 , pp. 61-74
    • Tschöp, W.1    Kremer, K.2    Batoulis, J.3    Bürger, T.4    Hahn, O.5
  • 13
    • 0032002911 scopus 로고    scopus 로고
    • Simulation of polymer melt. I. from coarse-grained models back to atomistic description
    • 10.1002 /(SICI) 1521-4044 (199802) 49:2/3<75::AID-APOL75>3.0.CO;2-5
    • W. Tschöp, K. Kremer, O. Hahn, J. Batoulis, and T. Bürger, " Simulation of polymer melt. I. From coarse-grained models back to atomistic description," Acta Polym. 49, 75-79 (1998). 10.1002/(SICI)1521- 4044(199802)49:2/3<75::AID-APOL75>3.0.CO;2-5
    • (1998) Acta Polym. , vol.49 , pp. 75-79
    • Tschöp, W.1    Kremer, K.2    Hahn, O.3    Batoulis, J.4    Bürger, T.5
  • 14
    • 0037043447 scopus 로고    scopus 로고
    • Time and length scales of polymer melts studied by coarse-grained molecular dynamics simulations
    • 10.1063/1.1481859
    • J. Padding and W. Briels, " Time and length scales of polymer melts studied by coarse-grained molecular dynamics simulations," J. Chem. Phys. 117, 925-943 (2002). 10.1063/1.1481859
    • (2002) J. Chem. Phys. , vol.117 , pp. 925-943
    • Padding, J.1    Briels, W.2
  • 15
    • 0035892850 scopus 로고    scopus 로고
    • Derivation of coarse-grained potential for polyethylene
    • 10.1016/S0010-4655(01)00311-3
    • H. Fukunaga, T. Aoyagi, J.-I. Takimoto, and M. Doi, " Derivation of coarse-grained potential for polyethylene," Comput. Phys. Commun. 142, 224-226 (2001). 10.1016/S0010-4655(01)00311-3
    • (2001) Comput. Phys. Commun. , vol.142 , pp. 224-226
    • Fukunaga, H.1    Aoyagi, T.2    Takimoto, J.-I.3    Doi, M.4
  • 16
    • 0037042149 scopus 로고    scopus 로고
    • A coarse-graining procedure for flexible polymer chains with bonded and non-bonded interactions
    • 10.1063/1.1469609
    • H. Fukunaga, J.-I. Takimoto, and M. Doi, " A coarse-graining procedure for flexible polymer chains with bonded and non-bonded interactions," J. Chem. Phys. 116, 8183-8190 (2002). 10.1063/1.1469609
    • (2002) J. Chem. Phys. , vol.116 , pp. 8183-8190
    • Fukunaga, H.1    Takimoto, J.-I.2    Doi, M.3
  • 17
    • 33645078713 scopus 로고
    • Calculation of effective interaction potentials from radial distribution functions: A reverse Monte Carlo approach
    • 10.1103/PhysRevE.52.3730
    • A. Lyubartsev and A. Laaksonen, " Calculation of effective interaction potentials from radial distribution functions: A reverse Monte Carlo approach," Phys. Rev. E 52, 3730-3737 (1995). 10.1103/PhysRevE.52.3730
    • (1995) Phys. Rev. e , vol.52 , pp. 3730-3737
    • Lyubartsev, A.1    Laaksonen, A.2
  • 18
    • 84869075127 scopus 로고    scopus 로고
    • Multiscale modeling approach toward the prediction of viscoelastic properties of polymers
    • 10.1021/ct300582y
    • G. Maurel, B. Schnell, F. Goujon, M. Couty, and P. Malfreyt, " Multiscale modeling approach toward the prediction of viscoelastic properties of polymers," J. Chem. Theor. Comput. 8 (11), 4570-4579 (2012). 10.1021/ct300582y
    • (2012) J. Chem. Theor. Comput. , vol.8 , Issue.11 , pp. 4570-4579
    • Maurel, G.1    Schnell, B.2    Goujon, F.3    Couty, M.4    Malfreyt, P.5
  • 19
    • 7044222119 scopus 로고    scopus 로고
    • Dissipative particle dynamics simulations of polymer melts. I. Building potential of mean force for polyethylene and cis-polybutadiene
    • 10.1063/1.1786917
    • X. Guerrault, B. Rousseau, and J. Farago, " Dissipative particle dynamics simulations of polymer melts. I. Building potential of mean force for polyethylene and cis-polybutadiene," J. Chem. Phys. 121, 6538-6546 (2004). 10.1063/1.1786917
    • (2004) J. Chem. Phys. , vol.121 , pp. 6538-6546
    • Guerrault, X.1    Rousseau, B.2    Farago, J.3
  • 20
    • 77249155208 scopus 로고    scopus 로고
    • Direct construction of mesoscopic models from microscopic simulations
    • 10.1103/PhysRevE.81.026704
    • H. Lei, B. Caswell, and G. E. Karniadakis, " Direct construction of mesoscopic models from microscopic simulations," Phys. Rev. E 81, 026704 (2010). 10.1103/PhysRevE.81.026704
    • (2010) Phys. Rev. e , vol.81 , pp. 026704
    • Lei, H.1    Caswell, B.2    Karniadakis, G.E.3
  • 21
    • 81155148666 scopus 로고    scopus 로고
    • Semi-bottom-up coarse-graining of water based on microscopic simulations
    • 10.1063/1.3658500
    • L. Gao and W. Fang, " Semi-bottom-up coarse-graining of water based on microscopic simulations," J. Chem. Phys. 135, 184101 (2011). 10.1063/1.3658500
    • (2011) J. Chem. Phys. , vol.135 , pp. 184101
    • Gao, L.1    Fang, W.2
  • 23
    • 0000127350 scopus 로고    scopus 로고
    • Optimization of the anisotropic united atoms intermolecular potential for n-alkanes
    • 10.1063/1.481116
    • P. Ungerer, C. Beauvais, J. Delhommelle, B. Rousseau, and A. H. Fuchs, " Optimization of the anisotropic united atoms intermolecular potential for n -alkanes," J. Chem. Phys. 112, 5499-5510 (2000). 10.1063/1.481116
    • (2000) J. Chem. Phys. , vol.112 , pp. 5499-5510
    • Ungerer, P.1    Beauvais, C.2    Delhommelle, J.3    Rousseau, B.4    Fuchs, A.H.5
  • 25
    • 0000026966 scopus 로고    scopus 로고
    • Explicit reversible integrators for extended systems dynamics
    • 10.1080/00268979600100761
    • G. J. Martyna, M. Tuckerman, D. Tobias, and M. Klein, " Explicit reversible integrators for extended systems dynamics," Mol. Phys. 87 (5), 1117-1157 (1996). 10.1080/00268979600100761
    • (1996) Mol. Phys. , vol.87 , Issue.5 , pp. 1117-1157
    • Martyna, G.J.1    Tuckerman, M.2    Tobias, D.3    Klein, M.4
  • 26
    • 84956259119 scopus 로고
    • Statistical mechanics of dissipative particles dynamics
    • 10.1209/0295-5075/30/4/001
    • P. Español and P. Warren, " Statistical mechanics of dissipative particles dynamics," Europhys. Lett. 30, 191-196 (1995). 10.1209/0295-5075/30/4/001
    • (1995) Europhys. Lett. , vol.30 , pp. 191-196
    • Español, P.1    Warren, P.2
  • 27
    • 79951784682 scopus 로고    scopus 로고
    • Bottom-up coarse-graining of a simple graphene model: The blob picture
    • 10.1063/1.3554395
    • D. Kauzlarić, J. Meier, P. Español, S. Succi, and A. Greiner, " Bottom-up coarse-graining of a simple graphene model: The blob picture," J. Chem. Phys. 134, 064106 (2011). 10.1063/1.3554395
    • (2011) J. Chem. Phys. , vol.134 , pp. 064106
    • Kauzlarić, D.1    Meier, J.2    Español, P.3    Succi, S.4    Greiner, A.5
  • 28
    • 26844470089 scopus 로고    scopus 로고
    • Mapping atomistic simulations to mesoscopic models: A systematic coarse-graining procedure for vinyl polymer chains
    • 10.1021/jp0523571
    • G. Milano and F. Müller-Plathe, " Mapping atomistic simulations to mesoscopic models: A systematic coarse-graining procedure for vinyl polymer chains," J. Phys. Chem. B 109 (39), 18609-18619 (2005). 10.1021/jp0523571
    • (2005) J. Phys. Chem. B , vol.109 , Issue.39 , pp. 18609-18619
    • Milano, G.1    Müller-Plathe, F.2
  • 30
    • 0037154592 scopus 로고    scopus 로고
    • The shear viscosity of molecular fluids: A calculation by reverse nonequilibrium molecular dynamics
    • 10.1063/1.1436124
    • P. Bordat and F. Müller-Plathe, " The shear viscosity of molecular fluids: A calculation by reverse nonequilibrium molecular dynamics," J. Chem. Phys. 116, 3362-3369 (2002). 10.1063/1.1436124
    • (2002) J. Chem. Phys. , vol.116 , pp. 3362-3369
    • Bordat, P.1    Müller-Plathe, F.2
  • 31
    • 36449008463 scopus 로고
    • Comparison of constant-pressure and constant volume nonequilibrium simulations of sheared model decane
    • 10.1063/1.466970
    • P. J. Daivis and D. J. Evans, " Comparison of constant-pressure and constant volume nonequilibrium simulations of sheared model decane," J. Chem. Phys. 100 (1), 541-547 (1994). 10.1063/1.466970
    • (1994) J. Chem. Phys. , vol.100 , Issue.1 , pp. 541-547
    • Daivis, P.J.1    Evans, D.J.2
  • 32
    • 74549186669 scopus 로고    scopus 로고
    • Viscosity of the 1-ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl) imide ionic liquid from equilibrium and nonequilibrium molecular dynamics
    • 10.1039/b918191a
    • N.-T. Van-Oanh, C. Houriez, and B. Rousseau, " Viscosity of the 1-ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide ionic liquid from equilibrium and nonequilibrium molecular dynamics," Phys. Chem. Chem. Phys. 12 (4), 930-936 (2010). 10.1039/b918191a
    • (2010) Phys. Chem. Chem. Phys. , vol.12 , Issue.4 , pp. 930-936
    • Van-Oanh, N.-T.1    Houriez, C.2    Rousseau, B.3
  • 33
    • 27144465013 scopus 로고
    • Self-diffusion in liquid n-pentane and n-heptane
    • 10.1021/j150527a022
    • E. Fishman, " Self-diffusion in liquid n-pentane and n-heptane," J. Phys. Chem. 59, 469-472 (1955). 10.1021/j150527a022
    • (1955) J. Phys. Chem. , vol.59 , pp. 469-472
    • Fishman, E.1
  • 34
    • 0038589072 scopus 로고
    • Dynamical structures of normal alkanes, alcohols and fatty acids in liquid state as determined by viscosity, self-diffusion coefficient, Infrared spectra, and 13C NMR spin-lattice relaxation time measurements
    • 10.1246/bcsj.63.2154
    • M. Iwahashi, Y. Yamaguchi, Y. Ogura, and M. Suzuki, " Dynamical structures of normal alkanes, alcohols and fatty acids in liquid state as determined by viscosity, self-diffusion coefficient, Infrared spectra, and 13C NMR spin-lattice relaxation time measurements," Bull. Chem. Soc. Jpn. 63 (8), 2154-2158 (1990). 10.1246/bcsj.63.2154
    • (1990) Bull. Chem. Soc. Jpn. , vol.63 , Issue.8 , pp. 2154-2158
    • Iwahashi, M.1    Yamaguchi, Y.2    Ogura, Y.3    Suzuki, M.4
  • 35
    • 33646744629 scopus 로고
    • Diffusion in paraffin hydrocarbons
    • 10.1021/j150567a020
    • D. C. Douglass and D. W. McCall, " Diffusion in paraffin hydrocarbons," J. Phys. Chem. 62 (9), 1102-1107 (1958). 10.1021/j150567a020
    • (1958) J. Phys. Chem. , vol.62 , Issue.9 , pp. 1102-1107
    • Douglass, D.C.1    McCall, D.W.2
  • 36
    • 84867555056 scopus 로고    scopus 로고
    • How good are coarse-grained polymer models? A comparison for atactic polystyrene
    • 10.1002/cphc.201200111
    • H. A. Karimi-Varzaneh, F. A. Nico van der Vegt, F. Müller-Plathe, and P. Carbone, " How good are coarse-grained polymer models? A comparison for atactic polystyrene," ChemPhysChem 13 (8), 3428-3439 (2012). 10.1002/cphc.201200111
    • (2012) ChemPhysChem , vol.13 , Issue.8 , pp. 3428-3439
    • Karimi-Varzaneh, H.A.1    Nico Van Der Vegt, F.A.2    Müller-Plathe, F.3    Carbone, P.4


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