Dissipative Particle Dynamics, Overview
Synonyms
Definition
Dissipative particle dynamics (DPD) is a stochastic mesoscopic simulation technique that describes clusters of molecules moving together in a Lagrangian fashion subject to simplified pairwise conservative, dissipative and random forces.
Introduction
Natural systems can be described at different scales based on both spatial and temporal size. In general, there are three different scales, i.e., micro-, meso-, and macroscales. A microscopic event occurs at nanometers in length and nanoseconds in time or, even less, governed by quantum mechanics or classical laws. Macroscale describes physical objects or phenomena that are measurable and visible directly with the naked eye, and thus, the mean free path of molecules is far smaller than the characteristic length of the geometry. A macroscopic event is usually described by continuum partial differential equations...
Keywords
Smooth Particle Hydrodynamic Smooth Particle Hydrodynamic Dissipative Particle Dynamic Amphiphilic Molecule Dissipative Particle Dynamic SimulationReferences
- 1.Hoogerbrugge, P.J., Koelman, J.M.V.A.: Simulating microscopic hydrodynamic phenomena with dissipative particle dynamics. Europhys. Lett. 19, 155–160 (1992)CrossRefGoogle Scholar
- 2.Español, P., Warren, P.: Statistical mechanics of dissipative particle dynamics. Europhys. Lett. 30, 191–196 (1995)CrossRefGoogle Scholar
- 3.Español, P.: Dissipative particle dynamics with energy conservation. Europhys. Lett. 40, 631–636 (1997)CrossRefGoogle Scholar
- 4.Español, P.: Fluid particle model. Phys. Rev. E 57, 2930–2948 (1998)CrossRefGoogle Scholar
- 5.Warren, P.B.: Vapor-liquid coexistence in many-body dissipative particle dynamics. Phys. Rev. E 68, 066702 (2003)CrossRefGoogle Scholar
- 6.Español, P., Revenga, M.: Smoothed dissipative particle dynamics. Phys. Rev. E 67, 026705 (2003)CrossRefGoogle Scholar
- 7.Groot, R.D., Warren, P.B.: Dissipative particle dynamics: Bridging the gap between atomistic and mesoscopic simulation. J. Chem. Phys. 107, 4423–4435 (1997)CrossRefGoogle Scholar
- 8.Pivkin, I.V., Caswell, B., Karniadakis, G.E.: Dissipative particle dynamics. In: Lipkowitz, K.B. (ed.) Reviews in Computational Chemistry, pp. 85–110. Wiley, New Jersey (2010)CrossRefGoogle Scholar
- 9.Groot, R.D.: Applications of dissipative particle dynamics. Lect. Notes Phys. 640, 5–38 (2004)CrossRefGoogle Scholar
- 10.Lu, Z.-Y., Wang, Y.-M.: An introduction to dissipative particle dynamics. In: Monticelli, L., Salonen, E. (eds.) Biomolecular Simulations: Methods and Protocols, Methods in Molecular Biology, pp. 617–633. Springer, New York (2013)CrossRefGoogle Scholar
- 11.Kong, Y., Manke, C.W., Madden, W.G., Schlijper, A.G.: Effect of solvent quality on the conformation and relaxation of polymers via dissipative particle dynamics. J. Chem. Phys. 107, 592–602 (1997)CrossRefGoogle Scholar
- 12.Fan, X.J., Phan-Thien, N., Ng, T.Y., Wu, X.H., Xu, D.: Microchannel flow of a macromolecular suspension. Phys. Fluids 15, 11–21 (2003)CrossRefGoogle Scholar
- 13.Fan, X.J., Phan-Thien, N., Chen, S., Wu, X.H., Ng, T.Y.: Simulating flow of DNA suspension using dissipative particle dynamics. Phys. Fluids 18, 063102 (2006)CrossRefGoogle Scholar
- 14.Doi, M., Edwards, S.F.: The Theory of Polymer Dynamics. Oxford University Press, London (1986)Google Scholar
- 15.Groot, R.D., Madden, T.J.: Dynamic simulation of diblock copolymer microphase separation. J. Chem. Phys. 108, 8713–8724 (1998)CrossRefGoogle Scholar
- 16.Yamamoto, S., Maruyama, Y., Hyodo, S.: Dissipative particle dynamics study of spontaneous vesicle formation of amphiphilic molecules. J. Chem. Phys. 116, 5842–5849 (2002)CrossRefGoogle Scholar
- 17.Huang, J.-H., Ma, Z.-X., Luo, M.-B.: Self-assembly of rod-coil diblock copolymers within a rod-selective slit: A dissipative particle dynamics simulation study. Langmuir 30, 6267–6273 (2014)CrossRefGoogle Scholar
- 18.Fedosov, D.A., Caswell, B., Karniadakis, G.E.: Dissipative particle dynamics modeling of red blood cells. In: Pozrikidis, C. (ed.) Computational Hydrodynamics of Capsules and Biological Cells, pp. 183–218. CRC Press, Boca Raton (2010)CrossRefGoogle Scholar
- 19.Li, J., Dao, M., Lim, C.T., Suresh, S.: Spectrin-level modeling of the cytoskeleton and optical tweezers stretching of the erythrocyte. Biophys. J. 88, 3707–3719 (2005)CrossRefGoogle Scholar
- 20.Fedosov, D.A., Pivkin, I.V., Pan, W.X., Dao, M., Caswell, B., Karniadakis, G.E.: Multiscale modeling of hematologic disorders. In: Ambrosi, D., Quarteroni, A., Rozza, G. (eds.) Modelling of Physiological Flows, pp. 289–331. Springer, New York (2012)CrossRefGoogle Scholar