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We study helix-coil transitions in an all-atom model of polyalanine. Molecules of up to length 30 residues are investigated by multicanonical simulations. Results from two implicit solvent models are compared with each other and with that…

Statistical Mechanics · Physics 2009-11-07 Yong Peng , Ulrich H. E. Hansmann , Nelson A. Alves

Using Langevin dynamics simulations, we investigate the dynamics of a flexible polymer translocation into a confined area under a driving force through a nanopore. We choose an ellipsoidal shape for the confinement and consider the…

Soft Condensed Matter · Physics 2012-12-06 Kehong Zhang , Kaifu Luo

We have studied the competition between helix formation and aggregation for a simple polymer model. We present simulation results for a system of two such polymers, examining the potential of mean force, the balance between inter and…

Soft Condensed Matter · Physics 2007-05-23 James E. Magee , Zhankai Song , Robin A. Curtis , Leo Lue

In this work we use molecular simulations to examine methods of controlling mechanical properties of polymeric glass materials such as elastic moduli, mechanical heterogeneity as well as their glass transition temperature. We study filled…

Soft Condensed Matter · Physics 2016-10-13 George J. Papakonstantopoulos , Juan J. de Pablo

Polymer blends offer an exciting material for various potential applications due to their tunable properties by varying constituting components and their relative composition. Our simulation results unravel an intrinsic relationship between…

Soft Condensed Matter · Physics 2016-10-13 Ashok Kumar Dasmahapatra

Heat transport can be modelled with a variety of approaches in real space (using molecular dynamics) or in reciprocal space (using the Boltzmann transport equation). Employing two conceptually different approaches of each type, we study…

Materials Science · Physics 2025-03-19 Lukas Reicht , Lukas Legenstein , Sandro Wieser , Egbert Zojer

Molecular dynamics simulation studies were performed to investigate the structural and dynamic properties of liquid carbon disulfide from ambient to elevated pressure conditions. The results obtained have revealed structural changes at high…

Materials Science · Physics 2016-10-24 Ioannis Skarmoutsos , Stefano Mossa , Jannis Samios

We analyze static properties of a strongly confined semiflexible polymer, i.e. either trapped in a closed space or compressed by external forces, in an athermal solvent. Like a flexible polymer case, we can resort to an analogy with the…

Soft Condensed Matter · Physics 2009-11-13 Takahiro Sakaue

We studied solvent-driven ordering dynamics of block copolymer films supported by a densely cross-linked polymer network designed as organic hard mask (HM) for lithographic fabrications. The ordering of microphase separated domains at low…

Soft Condensed Matter · Physics 2014-05-14 Anja Stenbock-Fermor , Armin W. Knoll , Alexander Böker , Larisa Tsarkova

We study the dynamics and conformation of polymers composed by active monomers. By means of Brownian dynamics simulations we show that when the direction of the self-propulsion of each monomer is aligned with the backbone, the polymer…

Soft Condensed Matter · Physics 2018-11-28 Valentino Bianco , Emanuele Locatelli , Paolo Malgaretti

Theoretical approaches are formulated to investigate the molecular mobility under various cooling rates of amorphous drugs. We describe the structural relaxation of a tagged molecule as a coupled process of cage-scale dynamics and…

Soft Condensed Matter · Physics 2019-12-10 Anh D. Phan , Katsunori Wakabayashi , Marian Paluch , Vu D. Lam

We have performed accurate dynamic light-scattering measurements near critical demixing points of solutions of polystyrene in cyclohexane with polymer molecular weight ranging from 200,000 to 11.4 million. Two dynamic modes have been…

Soft Condensed Matter · Physics 2009-11-07 A. F. Kostko , M. A. Anisimov , J. V. Sengers

The coil-globule transition of hetero-polymer chains is studied here. By means of extensive Molecular Dynamics simulations, we show that the transition is directly linked to the complexity of the chain, which depends on the number of…

Soft Condensed Matter · Physics 2022-09-07 Fabrizio Tafuri , Andrea Maria Chiariello

Chemical functionalization of graphene modifies the local electron density of the carbon atoms and hence electron transport. Measuring these changes allows for a closer understanding of the chemical interaction and the influence of…

Mesoscale and Nanoscale Physics · Physics 2010-12-17 A. Jacobsen , F. M. Koehler , W. J. Stark , K. Ensslin

Using molecular dynamics simulations, we study the slow dynamics of supercooled liquids confined in a random matrix of immobile obstacles. We study the dynamical crossover from glass-like to Lorentz-gas-like behavior in terms of the density…

Soft Condensed Matter · Physics 2011-05-30 Kang Kim , Kunimasa Miyazaki , Shinji Saito

Conformational transitions of flexible molecules, especially those driven by hydrophobic effects, tend to be hindered by desolvation barriers. For such transitions, it is thus important to characterize and understand the interplay between…

Soft Condensed Matter · Physics 2021-03-16 Debdas Dhabal , Zhitong Jiang , Amish J. Patel

The polymer dynamics of homogeneous C$_{60}$-polystyrene mixtures in the molten state are studied via molecular simulations using two interconnected levels of representation for polystyrene nanocomposites: (a) A coarse-grained…

Soft Condensed Matter · Physics 2014-01-20 Georgios G. Vogiatzis , Doros N. Theodorou

We study slow dynamics of particles moving in a matrix of immobile obstacles using molecular dynamics simulations. The glass transition point decreases drastically as the obstacle density increases. At higher obstacle densities, the…

Soft Condensed Matter · Physics 2009-11-17 Kang Kim , Kunimasa Miyazaki , Shinji Saito

We investigate a lattice model of polymers where the nearest-neighbour monomer-monomer interaction strengths differ according to whether the local configurations have so-called ``hydrogen-like'' formations or not. If the interaction…

Soft Condensed Matter · Physics 2009-11-13 J Krawczyk , A L Owczarek , T Prellberg

The diffusion of molecules (penetrants) of variable size, shape, and chemistry through dense crosslinked polymer networks is a fundamental scientific problem that is broadly relevant in materials, polymer, physical and biological chemistry.…