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Abelenda-Núñez I, Ortega F, Rubio RG, Guzmán E. Anomalous Colloidal Motion under Strong Confinement. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023; 19:e2302115. [PMID: 37116105 DOI: 10.1002/smll.202302115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2023] [Revised: 04/13/2023] [Indexed: 06/19/2023]
Abstract
Diffusion of biological macromolecules in the cytoplasm is a paradigm of colloidal diffusion in an environment characterized by a strong restriction of the accessible volume. This makes of the understanding of the physical rules governing colloidal diffusion under conditions mimicking the reduction in accessible volume occurring in the cell cytoplasm, a problem of a paramount importance. This work aims to study how the thermal motion of spherical colloidal beads in the inner cavity of giant unilamellar vesicles (GUVs) is modified by strong confinement conditions, and the viscoelastic character of the medium. Using single particle tracking, it is found that both the confinement and the environmental viscoelasticity lead to the emergence of anomalous motion pathways for colloidal microbeads encapsulated in the aqueous inner cavity of GUVs. This anomalous diffusion is strongly dependent on the ratio between the volume of the colloidal particle and that of the GUV under consideration as well as on the viscosity of the particle's liquid environment. Therefore, the results evidence that the reduction of the free volume accessible to colloidal motion pushes the diffusion far from a standard Brownian pathway as a result of the change in the hydrodynamic boundary conditions driving the particle motion.
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Affiliation(s)
- Irene Abelenda-Núñez
- Departamento de Química Física, Facultad de Ciencias Químicas, Universidad Complutense de Madrid, Ciudad Universitaria s/n., Madrid, 28040, Spain
| | - Francisco Ortega
- Departamento de Química Física, Facultad de Ciencias Químicas, Universidad Complutense de Madrid, Ciudad Universitaria s/n., Madrid, 28040, Spain
- Unidad de Materia Condensada, Instituto Pluridisciplinar, Universidad Complutense de Madrid, Paseo Juan XXIII 1., Madrid, 28040, Spain
| | - Ramón G Rubio
- Departamento de Química Física, Facultad de Ciencias Químicas, Universidad Complutense de Madrid, Ciudad Universitaria s/n., Madrid, 28040, Spain
| | - Eduardo Guzmán
- Departamento de Química Física, Facultad de Ciencias Químicas, Universidad Complutense de Madrid, Ciudad Universitaria s/n., Madrid, 28040, Spain
- Unidad de Materia Condensada, Instituto Pluridisciplinar, Universidad Complutense de Madrid, Paseo Juan XXIII 1., Madrid, 28040, Spain
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Kumar S, Acharya S, Bagchi B. Sensitivity of nonequilibrium relaxation to interaction potentials: Timescales of response from Boltzmann's H function. Phys Rev E 2023; 107:024138. [PMID: 36932515 DOI: 10.1103/physreve.107.024138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 02/09/2023] [Indexed: 06/18/2023]
Abstract
We investigate, by simulations and analytic theory, the sensitivity of nonequilibrium relaxation to interaction potential and dimensionality by using Boltzmann's H function H(t). We evaluate H(t) for three different intermolecular potentials in all three dimensions and find that the well-known H theorem is valid and that the H function exhibits rather strong sensitivity to all these factors. The relaxation of H(t) is long in one dimension, but short in three dimensions, longer for the Lennard-Jones potential than for the hard spheres. The origin of the ultraslow approach to the equilibrium of H(t) in one-dimensional systems is discussed. Importantly, we obtain a closed-form analytic expression for H(t) using the solution of the Fokker-Planck equation for velocity space probability distribution and compare its predictions with the simulation results. Interestingly, H(t) is found to exhibit a linear response when vastly different initial nonequilibrium conditions are employed. The microscopic origin of this linear response is discussed. The oft-quoted relation of H function with Clausius's entropy theorem is discussed.
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Affiliation(s)
- Shubham Kumar
- Solid State and Structural Chemistry Unit, Indian Institute of Science, Bengaluru-560012, Karnataka, India
| | - Subhajit Acharya
- Solid State and Structural Chemistry Unit, Indian Institute of Science, Bengaluru-560012, Karnataka, India
| | - Biman Bagchi
- Solid State and Structural Chemistry Unit, Indian Institute of Science, Bengaluru-560012, Karnataka, India
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Zhou Y, Mei B, Schweizer KS. Activated Relaxation in Supercooled Monodisperse Atomic and Polymeric WCA Fluids: Simulation and ECNLE Theory . J Chem Phys 2022; 156:114901. [DOI: 10.1063/5.0079221] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We combine simulation and Elastically Collective Nonlinear Langevin Equation (ECNLE) theory to study the activated relaxation in monodisperse atomic and polymeric WCA liquids over a wide range of temperatures and densities in the supercooled regime under isochoric conditions. By employing novel crystal-avoiding simulations, metastable equilibrium dynamics is probed in the absence of complications associated with size polydispersity. Based on highly accurate structural input from integral equation theory, ECNLE theory is found to describe well the simulated density and temperature dependences of the alpha relaxation time of atomic fluids using a single system-specific parameter, ac, that reflects the nonuniversal relative importance of the local cage and collective elastic barriers. For polymer fluids, the explicit dynamical effect of local chain connectivity is modeled at the fundamental dynamic free energy level based on a different parameter, Nc, that quantifies the degree of intramolecular correlation of bonded segment activated barrier hopping. For the flexible chain model studied, a physically intuitive value of Nc≈2 results in good agreement between simulation and theory. A direct comparison between atomic and polymeric systems reveals chain connectivity can speed up activated segmental relaxation due to weakening of equilibrium packing correlations, but can slow down relaxation due to local bonding constraints. The empirical thermodynamic scaling idea for the alpha time is found to work well at high densities or temperatures, but fails when both density and temperature are low. The rich and subtle behaviors revealed from simulation for atomic and polymeric WCA fluids are all well captured by ECNLE theory.
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Affiliation(s)
- Yuxing Zhou
- UIUC, University of Illinois at Urbana-Champaign Department of Materials Science and Engineering, United States of America
| | - Baicheng Mei
- University of Illinois at Urbana-Champaign Department of Materials Science and Engineering, United States of America
| | - Kenneth S. Schweizer
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, United States of America
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Manacorda A, Schehr G, Zamponi F. Numerical solution of the dynamical mean field theory of infinite-dimensional equilibrium liquids. J Chem Phys 2020; 152:164506. [PMID: 32357780 DOI: 10.1063/5.0007036] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We present a numerical solution of the dynamical mean field theory of infinite-dimensional equilibrium liquids established by Maimbourg et al. [Phys. Rev. Lett. 116, 015902 (2016)]. For soft sphere interactions, we obtain the numerical solution by an iterative algorithm and a straightforward discretization of time. We also discuss the case of hard spheres for which we first derive analytically the dynamical mean field theory as a non-trivial limit of that of soft spheres. We present numerical results for the memory function and the mean square displacement. Our results reproduce and extend kinetic theory in the dilute or short-time limit, while they also describe dynamical arrest toward the glass phase in the dense strongly interacting regime.
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Affiliation(s)
- Alessandro Manacorda
- Laboratoire de Physique de l'Ecole Normale Supérieure, ENS, Université PSL, CNRS, Sorbonne Université, Université de Paris, F-75005 Paris, France
| | - Grégory Schehr
- Université Paris-Saclay, CNRS, LPTMS, 91405 Orsay, France
| | - Francesco Zamponi
- Laboratoire de Physique de l'Ecole Normale Supérieure, ENS, Université PSL, CNRS, Sorbonne Université, Université de Paris, F-75005 Paris, France
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Bardik VY, Malomuzh NP, Shakun KS. High-frequency asymptote for the velocity auto-correlation function spectrum of argon-like systems. J Chem Phys 2012; 136:244511. [DOI: 10.1063/1.4729849] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Singh RS, Santra M, Bagchi B. Sensitivity of nucleation phenomena on range of interaction potential. J Chem Phys 2012; 136:084701. [PMID: 22380053 DOI: 10.1063/1.3685835] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Theoretical and computational investigations of nucleation have been plagued by the sensitivity of the phase diagram to the range of the interaction potential. As the surface tension depends strongly on the range of interaction potential and as the classical nucleation theory (CNT) predicts the free energy barrier to be directly proportional to the cube of the surface tension, one expects a strong sensitivity of nucleation barrier to the range of the potential; however, CNT leaves many aspects unexplored. We find for gas-liquid nucleation in Lennard-Jones system that on increasing the range of interaction the kinetic spinodal (KS) (where the mechanism of nucleation changes from activated to barrierless) shifts deeper into the metastable region. Therefore the system remains metastable for larger value of supersaturation and this allows one to explore the high metastable region without encountering the KS. On increasing the range of interaction, both the critical cluster size and pre-critical minima in the free energy surface of kth largest cluster, at respective kinetic spinodals, shift towards smaller cluster size. In order to separate surface tension contribution to the increase in the barrier from other non-trivial factors, we introduce a new scaling form for surface tension and use it to capture both the temperature and the interaction range dependence of surface tension. Surprisingly, we find only a weak non-trivial contribution from other factors to the free energy barrier of nucleation.
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Affiliation(s)
- Rakesh S Singh
- Solid State and Structural Chemistry Unit, Indian Institute of Science, Bangalore 560012, India
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Shall LA, Egorov SA. Structural and dynamical anomalies of a Gaussian core fluid: A mode-coupling theory study. J Chem Phys 2010. [DOI: 10.1063/1.3429354] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
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Rickayzen G, Heyes DM. The autocorrelation functions of a fluid of molecules interacting through steep attractive potentials. J Chem Phys 2008; 129:234508. [DOI: 10.1063/1.3036422] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Egorov SA. Structural and dynamical properties of a core-softened fluid in a supercritical region. J Chem Phys 2008; 129:024514. [DOI: 10.1063/1.2953332] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
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Egorov SA. A mode-coupling theory treatment of the transport coefficients of the Lennard–Jones fluid. J Chem Phys 2008; 128:144508. [DOI: 10.1063/1.2898496] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
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Rickayzen G, Heyes DM. Autocorrelation functions of a fluid of molecules interacting through steeply repulsive and attractive forces. J Chem Phys 2007; 126:234503. [PMID: 17600421 DOI: 10.1063/1.2740260] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
A new method is presented for an extension of Enskog's approximation for the evaluation of the autocorrelation functions of a fluid, and this approach is used to evaluate these functions when the interaction between the molecules includes both steeply repulsive and steeply attractive forces. Consequently the correlation functions depend upon the temperature in a nontrivial way. As an example, the method is applied to calculate the velocity and force autocorrelation functions of a fluid when the molecules interact through the specific potential, V(r)=4epsilon[(sigma/r)2n-(sigma/r)n] when the parameter n is large. There is a relationship between this model and the "sticky sphere" one which is exploited in the theoretical computations. The results obtained from the theory are compared with molecular dynamics simulation for n=72 and 144 and for a range of temperatures from T=epsilon/kB down to epsilon/3kB. The two approaches agree very well for a range of state points, especially at short times. At later times the theory predicts a more oscillatory behavior than the simulation especially at very low reduced temperatures.
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Affiliation(s)
- G Rickayzen
- Division of Chemistry, School of Biomedical and Molecular Sciences, University of Surrey, Guildford GU2 7XH, United Kingdom.
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Rickayzen G, Heyes DM. Memory function for a fluid of molecules interacting through steeply repulsive potentials. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2005; 71:061204. [PMID: 16089728 DOI: 10.1103/physreve.71.061204] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2005] [Indexed: 05/03/2023]
Abstract
Previous studies of the properties of fluids of molecules interacting through steeply repulsive central potentials are extended to the investigation of the memory function. It is assumed that collisions are dominated by binary collisions and a general formula previously derived by Miyazaki, Srinivas, and Bagchi [J. Chem. Phys. 114, 6276 (2001)] is applied to the present problem. It is shown that the equations of motion of a pair of molecules can be solved explicitly and substitution of the result into the formula leads to a closed explicit expression for the memory function which is easily evaluated for any given state. In the limit of hard spheres this result leads to Enskog's equation and represents a generalization of that formula to fluids with softer potentials. The results obtained from the formula are compared with those derived from the molecular dynamics simulation. The velocity autocorrelation function was calculated using the generalized soft sphere potential, phi(r) = epsilon (sigma/r)(n), where epsilon and sigma set the energy and size of the molecule, and the exponent, n, is a variable. The two approaches agree very well for a range of state points for n large, especially at short times.
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Affiliation(s)
- G Rickayzen
- Division of Chemistry, School of Biomedical and Molecular Sciences, University of Surrey, Guildford GU2 7XH, United Kingdom.
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Yamaguchi T, Matsuoka T, Koda S. Molecular dynamics simulation study on the transient response of solvation structure during the translational diffusion of solute. J Chem Phys 2005; 122:14512. [PMID: 15638679 DOI: 10.1063/1.1828039] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023] Open
Abstract
The transient response function of the density profile of the solvent around a solute during the translational diffusion of the solute is formulated based on the generalized Langevin formalism. The resultant theory is applied to both neat Lennard-Jones fluids and cations in liquid water, and the response functions are obtained from the analysis of the molecular dynamics simulations. In the case of the self-diffusion of Lennard-Jones fluids, the responses of the solvation structures are in harmony with conventional pictures based on the mode-coupling theory, that is, the binary collision in the low-density fluids, the backflow effect from medium to high density fluids, and the backscatter effect in the liquids near the triple point. In the case of cations in water, the qualitative behavior is strongly dependent on the size of cations. The pictures similar to simple dense liquids are obtained for the large ion and the neutral molecule, while the solvent waters within the first solvation shell of small ions show an oscillatory response in the short-time region. In particular, the oscillation is remarkably underdumped for lithium ion. The origin of the oscillation is discussed in relation to the theoretical treatment of the translational diffusion of ions in water.
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Affiliation(s)
- T Yamaguchi
- Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University, Chikusa, Nagoya, Aichi 464-8603, Japan.
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Yamaguchi T, Chong SH, Hirata F. Mode-coupling analysis of the translational and rotational diffusion of polar liquids; acetonitrile and water. J Mol Liq 2004. [DOI: 10.1016/j.molliq.2003.09.019] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Felderhof BU, Vehns T. Memory effect in friction on a particle caused by a system of fixed or moving scatterers with power law potential. J Chem Phys 2004; 121:2536-41. [PMID: 15281850 DOI: 10.1063/1.1768937] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The memory function for friction on a particle caused by a system of fixed or moving scatterers is evaluated for power law interaction. For a dilute system the study extends the steady-state calculation based on the Boltzmann equation to the case of frequency dependence due to the dynamics of the scattering process. For a dense gas an Enskog approximation can be used. The power law potential leads to scaling behavior of the dynamical friction coefficient as a function of reduced mass, coupling coefficient, and energy.
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Affiliation(s)
- B U Felderhof
- Institut fur Theoretische Physik A, RWTH Aachen, Templergraben 55, 52056 Aachen, Germany.
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HEYES DAVIDM, POWLES JACKG, RICKAYZEN GERALD. The velocity autocorrelation function and self-diffusion coefficient of fluids with steeply repulsive potentials. Mol Phys 2002. [DOI: 10.1080/00268970110096704] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Miyazaki K, de Schepper IM. Exact calculation of the linear term in the density expansion of the dynamic structure factor of a dilute gas. PHYSICAL REVIEW LETTERS 2001; 87:214502. [PMID: 11736342 DOI: 10.1103/physrevlett.87.214502] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2001] [Indexed: 05/23/2023]
Abstract
We evaluate the linear term in the density expansion of the dynamic structure factor for a classical gas using a generalized Enskog theory developed by one of the authors, which enables us to describe the dynamics at small time and length scales where the use of the Boltzmann equation is severely limited. Agreement of the theory with experiment and simulation is very good. We find that the linear term is very sensitive to the shape of the potential so that the dynamic structure factor can serve as a good probe to determine the intermolecular potentials of dilute gases.
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Affiliation(s)
- K Miyazaki
- IRI, Delft University of Technology, 2629 JB Delft, The Netherlands.
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Bagchi B, Srinivas G, Miyazaki K. The Enskog theory for classical vibrational energy relaxation in fluids with continuous potentials. J Chem Phys 2001. [DOI: 10.1063/1.1392360] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Yamaguchi T, Matubayasi N, Nakahara M. A mode-coupling approach to the attractive interaction effect on the solute diffusion in liquids. J Chem Phys 2001. [DOI: 10.1063/1.1379538] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Miyazaki K, de Schepper IM. Dynamic structure factor of a dilute Lennard-Jones gas. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2001; 63:060201. [PMID: 11415058 DOI: 10.1103/physreve.63.060201] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2001] [Indexed: 05/23/2023]
Abstract
We calculate the leading correction term in the density expansion of the dynamic structure factor for a Lennard-Jones fluid using the Boltzmann equation. The qualitative behavior is found to be very similar to the hard-sphere result reported by Kamgar-Parsi et al. [Phys. Rev. A 35, 4781 (1987)]. A comparison was made with the results from the neutron scattering experiment by Verkerk et al. [Phys. Rev. Lett. 67, 1262 (1991)] for dilute argon gases. Several possibilities to explain the discrepancies of the present results from the experiment are proposed.
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Affiliation(s)
- K Miyazaki
- IRI, Delft University of Technology, 2629 JB Delft, The Netherlands.
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