Literature DB >> 10935971

Computation of writhe in modeling of supercoiled DNA.

K Klenin1, J Langowski.   

Abstract

We describe four previously unpublished methods allowing the computation of the writhe for a supercoiled DNA molecule modeled by a polymer chain consisting of straight segments. These methods are compared with each other in terms of computational efficiency and the scope of their applicability is discussed. Copyright 2000 John Wiley & Sons, Inc.

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Year:  2000        PMID： 10935971     DOI： 10.1002/1097-0282(20001015)54:5<307::AID-BIP20>3.0.CO;2-Y

Source DB:  PubMed          Journal:  Biopolymers        ISSN： 0006-3525            Impact factor:   2.505


  43 in total

1.  A computer-generated supercoiled model of the pUC19 plasmid.

Authors:  E A Kümmerle; E Pomplun
Journal:  Eur Biophys J       Date:  2004-08-06       Impact factor: 1.733

2.  Modeling of chromosome intermingling by partially overlapping uniform random polygons.

Authors:  T Blackstone; R Scharein; B Borgo; R Varela; Y Diao; J Arsuaga
Journal:  J Math Biol       Date:  2010-04-09       Impact factor: 2.259

3.  Twist propagation in dinucleosome arrays.

Authors:  Irina V Dobrovolskaia; Martin Kenward; Gaurav Arya
Journal:  Biophys J       Date:  2010-11-17       Impact factor: 4.033

4.  WASP: a software package for correctly characterizing the topological development of ribbon structures.

Authors:  Zachary Sierzega; Jeff Wereszczynski; Chris Prior
Journal:  Sci Rep       Date:  2021-01-15       Impact factor: 4.379

5.  DNA packaging in bacteriophage: is twist important?

Authors:  Andrew James Spakowitz; Zhen-Gang Wang
Journal:  Biophys J       Date:  2005-04-01       Impact factor: 4.033

6.  Statistical-mechanical theory of DNA looping.

Authors:  Yongli Zhang; Abbye E McEwen; Donald M Crothers; Stephen D Levene
Journal:  Biophys J       Date:  2005-12-16       Impact factor: 4.033

7.  Intrinsic curvature of DNA influences LacR-mediated looping.

Authors:  Sachin Goyal; Todd Lillian; Seth Blumberg; Jens-Christian Meiners; Edgar Meyhöfer; N C Perkins
Journal:  Biophys J       Date:  2007-08-31       Impact factor: 4.033

8.  A semiflexible polymer ring acting as a nano-propeller.

Authors:  H Wada
Journal:  Eur Phys J E Soft Matter       Date:  2009-01       Impact factor: 1.890

9.  Design and synthesis of the first triply twisted Möbius annulene.

Authors:  Gaston R Schaller; Filip Topić; Kari Rissanen; Yoshio Okamoto; Jun Shen; Rainer Herges
Journal:  Nat Chem       Date:  2014-05-25       Impact factor: 24.427

10.  DNA modeling reveals an extended lac repressor conformation in classic in vitro binding assays.

Authors:  Andrew D Hirsh; Todd D Lillian; Troy A Lionberger; N C Perkins
Journal:  Biophys J       Date:  2011-08-03       Impact factor: 4.033
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