Literature DB >> 12633414

Cyclization of a polymer: first-passage problem for a non-Markovian process.

I M Sokolov1.   

Abstract

We discuss a closure of a polymer chain released from a state with given end-to-end distance. Considering the situation as a first passage problem for a non-Markovian process, we express the survival probability through the three-time distribution of the end-to-end distance and evaluate it numerically by solving a Volterra equation. We also show how the Wilemski-Fixmann approximation emerges within this scheme and discuss its geometrical nature.

Entities:  

Year:  2003        PMID: 12633414     DOI: 10.1103/PhysRevLett.90.080601

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  8 in total

1.  Ribosome recycling, diffusion, and mRNA loop formation in translational regulation.

Authors:  Tom Chou
Journal:  Biophys J       Date:  2003-08       Impact factor: 4.033

2.  Non-Markovian polymer reaction kinetics.

Authors:  T Guérin; O Bénichou; R Voituriez
Journal:  Nat Chem       Date:  2012-06-10       Impact factor: 24.427

3.  Kinetics of internal-loop formation in polypeptide chains: a simulation study.

Authors:  Dana Doucet; Adrian Roitberg; Stephen J Hagen
Journal:  Biophys J       Date:  2007-01-05       Impact factor: 4.033

4.  Renormalization group analysis of polymer cyclization with non-equilibrium initial conditions.

Authors:  B A Friedman; C Yeung
Journal:  Eur Phys J E Soft Matter       Date:  2006-10-06       Impact factor: 1.890

5.  Sequence and temperature dependence of the end-to-end collision dynamics of single-stranded DNA.

Authors:  Takanori Uzawa; Takashi Isoshima; Yoshihiro Ito; Koichiro Ishimori; Dmitrii E Makarov; Kevin W Plaxco
Journal:  Biophys J       Date:  2013-06-04       Impact factor: 4.033

6.  The rate of intramolecular loop formation in DNA and polypeptides: the absence of the diffusion-controlled limit and fractional power-law viscosity dependence.

Authors:  Ryan R Cheng; Takanori Uzawa; Kevin W Plaxco; Dmitrii E Makarov
Journal:  J Phys Chem B       Date:  2009-10-22       Impact factor: 2.991

7.  The length and viscosity dependence of end-to-end collision rates in single-stranded DNA.

Authors:  Takanori Uzawa; Ryan R Cheng; Kevin J Cash; Dmitrii E Makarov; Kevin W Plaxco
Journal:  Biophys J       Date:  2009-07-08       Impact factor: 4.033

8.  Analysis of Single Locus Trajectories for Extracting In Vivo Chromatin Tethering Interactions.

Authors:  Assaf Amitai; Mathias Toulouze; Karine Dubrana; David Holcman
Journal:  PLoS Comput Biol       Date:  2015-08-28       Impact factor: 4.475

  8 in total

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