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Chemical reactions inside cells are typically subject to the effects both of the cell's confining surfaces and of the viscoelastic behavior of its contents. In this paper, we show how the outcome of one particular reaction of relevance to…

Soft Condensed Matter · Physics 2015-06-04 Pinaki Bhattacharyya , Rati Sharma , Binny J. Cherayil

We examine the local geometry of a simulated glass-forming polymer melt. Using the Voronoi construction, we find that the distributions of Voronoi volume $P(v_V)$ and asphericity $P(a)$ appear to be universal properties of dense liquids,…

Condensed Matter · Physics 2009-11-07 Francis W. Starr , Srikanth Sastry , Jack F. Douglas , Sharon C. Glotzer

We used molecular dynamics simulations based on a potential model in analogy to the Tight Binding scheme in the Second Moment Approximation to simulate the effects of aluminum icosahedral grains (dispersoids) on the structure and the…

Materials Science · Physics 2009-11-10 H Chamati , M S Stoycheva , G A Evangelakis

Physical systems are frequently modeled as sets of points in space, each representing the position of an atom, molecule, or mesoscale particle. As many properties of such systems depend on the underlying ordering of their constituent…

Other Condensed Matter · Physics 2015-11-18 Emanuel A. Lazar , Jian Han , David J. Srolovitz

Nanoscale polymeric thin films are widely used in diverse applications such as energy devices, flexible electronics and biosensors, where a satisfactory mechanical performance is of vital importance to realize their full functionality. It…

Soft Condensed Matter · Physics 2022-06-29 Zhengyang Zhang , Pei Bai , Yuhan Xiao , Yunlong Guo , Yanming Wang

We present a detailed account of a recently proposed phenomenological theory for noncatenated ring polymer melts (Phys. Rev. Lett. 106, 167802 (2011)). A basic assumption lies in the implementation of the noncatenation constraint via the…

Soft Condensed Matter · Physics 2015-06-04 Takahiro Sakaue

A jammed packing of frictionless spheres at zero temperature is perfectly specified by the network of contact forces from which mechanical properties can be derived. However, we can alternatively consider a packing as a geometric structure,…

Soft Condensed Matter · Physics 2015-11-26 Peter K. Morse , Eric I. Corwin

In this work we incorporate some real-system effects into the theory of orientational phase transitions under shear flow (M. E. Cates and S. T. Milner, Phys. Rev. Lett. v.62, p.1856 (1989) and G. H. Fredrickson, J. Rheol. v.38, p.1045…

Soft Condensed Matter · Physics 2009-11-07 A. N. Morozov , A. V. Zvelindovsky , J. G. E. M. Fraaije

Voronoi tessellations of Poisson point processes are widely used for modeling many types of physical and biological systems. In this paper, we analyze simulated Poisson-Voronoi structures containing a total of 250,000,000 cells to provide…

Computational Physics · Physics 2014-01-09 Emanuel A. Lazar , Jeremy K. Mason , Robert D. MacPherson , David J. Srolovitz

Molecular dynamics simulation methods are used to study the folding of polymer chains into packed cubic states. The polymer model, based on a chain of linked sites moving in the continuum, includes both excluded volume and torsional…

Soft Condensed Matter · Physics 2009-11-10 D. C. Rapaport

The endpoint distribution and dynamics of semiflexible fibers is studied by numerical simulation. A brief overview is given over the analytical theory of flexible and semiflexible polymers. In particular, a closed expression is given for…

Soft Condensed Matter · Physics 2013-06-13 Robert D. Groot

Here we present a computational study of the thermodynamic and structural properties of bulk and confined (1,1,1,3,3-pentafuorobutane) with different lengths of the carbon backbone. The DREIDING force field model has been used in the method…

Soft Condensed Matter · Physics 2022-11-08 Yu. D. Fomin , E. N. Tsiok , V. N. Ryzhov

We study the spontaneous nucleation and crystallization of linear and cyclic chains of flexibly connected hard spheres using extensive molecular dynamics simulations. To this end, we present a novel event-driven molecular dynamics…

Soft Condensed Matter · Physics 2012-06-27 Ran Ni , Marjolein Dijkstra

Polygonal chains are fundamental objects in many applications like pattern recognition and protein structure alignment. A well-known measure to characterize the similarity of two polygonal chains is the famous Fr\`{e}chet distance. In this…

Computational Geometry · Computer Science 2007-05-23 Sergey Bereg , Marina Gavrilova , Binhai Zhu

In this paper, we have studied polystyrene (PS) and polyethylene (PE) stiffness by 3-dimensional Langevin Molecular Dynamics simulation. Hard polymers have a very small bending, and thus, their end-to-end distance is more than soft…

Materials Science · Physics 2015-10-13 Mahdi Ahmadi Borji

Reversible crosslinking is a design paradigm for polymeric materials, wherein they are microscopically reinforced with chemical species that form transient crosslinks between the polymer chains. Besides the potential for self-healing,…

Soft Condensed Matter · Physics 2019-04-29 Nicholas B. Tito , Costantino Creton , Cornelis Storm , Wouter G. Ellenbroek

We consider the thermal breakage of a tethered polymer chain of discrete segments coupled by Morse potentials under constant tensile stress. The chain dynamics at the onset of fracture is studied analytically by Kramers-Langer…

Soft Condensed Matter · Physics 2010-06-24 A. Ghosh , D. I. Dimitrov , V. G. Rostiashvili , A. Milchev , T. A. Vilgis

We describe a high-resolution, high-bandwidth technique for determining the local viscoelasticity of soft materials such as polymer gels. Loss and storage shear moduli are determined from the power spectra of thermal fluctuations of…

Soft Condensed Matter · Physics 2009-10-30 F. Gittes , B. Schnurr , P. D. Olmsted , F. C. MacKintosh , C. F. Schmidt

We introduce a framework for the generation of grid-shell structures that is based on Voronoi diagrams and allows us to design tessellations that achieve excellent static performances. We start from an analysis of stress on the input…

Graphics · Computer Science 2014-08-29 Nico Pietroni , Davide Tonelli , Enrico Puppo , Maurizio Froli , Roberto Scopigno , Paolo Cignoni

We address the general question of how the molecular weight dependence of chain dynamics in unentangled polymers is modified by blending. By dielectric spectroscopy we measure the normal mode relaxation of polyisoprene in blends with a slow…

Soft Condensed Matter · Physics 2012-02-24 Silvia Arrese-Igor , Angel Alegria , Angel J. Moreno , Juan Colmenero