4.7 Article

Statistics and geometrical picture of ring polymer melts and solutions

期刊

PHYSICAL REVIEW E
卷 85, 期 2, 页码 -

出版社

AMER PHYSICAL SOC
DOI: 10.1103/PhysRevE.85.021806

关键词

-

向作者/读者索取更多资源

We present a detailed account of a recently proposed phenomenological theory for noncatenated ring polymer melts [Sakaue, Phys. Rev. Lett. 106, 167802 (2011)]. A basic assumption lies in the implementation of the noncatenation constraint via the effective excluded-volume effect, from which a geometrical picture of melts emerges. The result captures many of the salient features observed so far, including (i) the overall spatial size of rings, (ii) the coordinate number, i. e., the number of rings surrounding a given ring, (iii) the topological length scale as a function of the molecular weight, and (iv) the effect of the chain stiffness and concentration. We also suggest a geometrical interpretation of the topological length scale, which may shed some light on the entanglement concept in polymeric systems.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

4.7
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

Article Chemistry, Physical

Active diffusion of model chromosomal loci driven by athermal noise

Takahiro Sakaue, Takuya Saito

SOFT MATTER (2017)

Article Chemistry, Physical

Non-Markovian dynamics of reaction coordinate in polymer folding

T. Sakaue, J. -C. Walter, E. Carlon, C. Vanderzande

SOFT MATTER (2017)

Article Physics, Condensed Matter

Compressing a confined DNA: from nano-channel to nano-cavity

Takahiro Sakaue

JOURNAL OF PHYSICS-CONDENSED MATTER (2018)

Article Chemistry, Physical

Effect of Memory and Active Forces on Transition Path Time Distributions

E. Carlon, H. Orland, T. Sakaue, C. Vanderzande

JOURNAL OF PHYSICAL CHEMISTRY B (2018)

Article Chemistry, Applied

Statistical physics of ring polymers based on topological volume concept

Takahiro Sakaue

REACTIVE & FUNCTIONAL POLYMERS (2019)

Article Polymer Science

Dynamical Entanglement and Cooperative Dynamics in Entangled Solutions of Ring and Linear Polymers

Davide Michieletto, Takahiro Sakaue

Summary: The study introduces a novel dynamical entanglement analysis (DEA) method to extract spatiotemporal entanglement structures from pairwise displacement correlation of entangled chains. Applying DEA to molecular dynamics simulations reveals a strong and unexpected cooperative dynamics between entangled chains, providing previously unnoticed insights into the dynamics of generic entangled polymers. The method is proposed to be useful in analyzing the dynamical evolution of entanglements in generic polymeric systems like blends and composites.

ACS MACRO LETTERS (2021)

Article Biochemistry & Molecular Biology

Slow chromatin dynamics enhances promoter accessibility to transcriptional condensates

Tetsuya Yamamoto, Takahiro Sakaue, Helmut Schiessel

Summary: Enhancers are DNA sequences located far from target genes, and studies show that the contact probability between promoters and transcription machineries in condensates increases with longer linker DNA lengths when the loop extrusion process is active.

NUCLEIC ACIDS RESEARCH (2021)

Article Biology

How enzymatic activity is involved in chromatin organization

Rakesh Das, Takahiro Sakaue, G. Shivashankar, Jacques Prost, Tetsuya Hiraiwa, Naama Barkai

Summary: This study constructs a polymer physics model based on the mechanistic scheme of Topoisomerase-II to investigate its effect on the spatial organization of interphase chromatin. The simulations show that Topoisomerase-II can phase separate chromatin into eu- and heterochromatic regions, with a wall-like organization of the euchromatic regions. The ability of the euchromatic regions to cross each other, induced by the enzymatic activity of Topoisomerase-II, leads to this phase separation. The model is extended to a bidisperse setting, and the characteristic features of enzymatic activity-driven phase separation are observed. These findings highlight the critical role of enzymatic activity in chromatin organization.
Article Chemistry, Physical

Twist dynamics and buckling instability of ring DNA: the effect of groove asymmetry and anisotropic bending

Yair Augusto Gutierrez Fosado, Fabio Landuzzi, Takahiro Sakaue

Summary: The relaxation dynamics of DNA circular plasmids undergoing a local twist perturbation is studied using analytical theory and Molecular Dynamics simulations. The twist-bend coupling in the DNA double helix due to groove asymmetry is clearly observed. Differences in diffusion coefficient values and dynamics are found in scenarios with and without this coupling, and can be explained by the existence of three distinctive time scales. Time scale separation allows the deduction of an effective diffusion equation with a diffusion coefficient influenced by twist-bend coupling.

SOFT MATTER (2021)

Article Chemistry, Physical

Transition path times in asymmetric barriers

Michele Caraglio, Takahiro Sakaue, Enrico Carlon

PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2020)

Article Physics, Fluids & Plasmas

Compressive response and helix formation of a semiflexible polymer confined in a nanochannel

Yumino Hayase, Takahiro Sakaue, Hiizu Nakanishi

PHYSICAL REVIEW E (2017)

Article Physics, Fluids & Plasmas

Complementary mode analyses between sub-and superdiffusion

Takuya Saito, Takahiro Sakaue

PHYSICAL REVIEW E (2017)

暂无数据