Literature DB >> 19571364

Statistics of polymer rings in the melt: a numerical simulation study.

Thomas Vettorel1, Alexander Y Grosberg, Kurt Kremer.   

Abstract

Topologically constrained molecular systems are relevant to many areas of physics and biology, from the collapse of a polymer gel to the existence of chromosome territories. As a model system for the study of such unusual interactions, we simulated melts of unconcatenated polymer rings, where topology directly influences not only dynamic properties, as is the case for linear chains, but also the statics. In order to access the relatively large chain lengths required to observe significant effects, we implemented an efficient, on-lattice Monte Carlo model allowing for fast relaxation thanks to non-local moves which randomly displace kinks along the polymer contour. The sufficiently long rings are shown to behave as compact objects, their size scaling as N(1/3) for large chain length N; this observation is supported by measurements of several other static properties. The entanglement length of the rings' linear counterparts is used to characterize the topological constraints, allowing for an estimate of the onset of the regime where rings are compact.

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Year:  2009        PMID: 19571364     DOI: 10.1088/1478-3975/6/2/025013

Source DB:  PubMed          Journal:  Phys Biol        ISSN: 1478-3967            Impact factor:   2.583


  31 in total

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3.  Anomalous and heterogeneous DNA transport in biomimetic cytoskeleton networks.

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Review 4.  Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data.

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Review 5.  Higher-order chromatin structure: bridging physics and biology.

Authors:  Geoffrey Fudenberg; Leonid A Mirny
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6.  Flory theory of randomly branched polymers.

Authors:  Ralf Everaers; Alexander Y Grosberg; Michael Rubinstein; Angelo Rosa
Journal:  Soft Matter       Date:  2017-02-08       Impact factor: 3.679

7.  Computational 3D genome modeling using Chrom3D.

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8.  The role of transcription factories-mediated interchromosomal contacts in the organization of nuclear architecture.

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Review 9.  Modeling chromosomes: Beyond pretty pictures.

Authors:  Maxim V Imakaev; Geoffrey Fudenberg; Leonid A Mirny
Journal:  FEBS Lett       Date:  2015-09-10       Impact factor: 4.124

10.  Topological origins of chromosomal territories.

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Journal:  Nucleic Acids Res       Date:  2009-09-02       Impact factor: 16.971

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