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Bioinformatics Advance Access published online on May 3, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl164
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received October 13, 2005
Revised March 26, 2006
Accepted April 26, 2006

Applications note

TopoICE-R: 3D visualization modelling the topology of DNA recombination

Isabel K. Darcy 1 * and Robert G. Scharein 2

1 Department of Mathematics, University of Iowa, Iowa City, IA 52242, USA
2 Hypnagogic Software, Vancouver, BC, Canada

* To whom correspondence should be addressed.
Isabel K. Darcy, E-mail: idarcy{at}math.uiowa.edu


  Abstract

TopoICE-R is a 3D visualization and manipulation software for solving 2-string tangle equations and can be used to model the topology of DNA bound by proteins such as recombinases and topoisomerases.

Availability: This software, manual, and example files are available at www.knotplot.com/download for linux, PC, and Mac.

Associate Editor: Martin Bishop
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I. K. Darcy, R. G. Scharein, and A. Stasiak
3D visualization software to analyze topological outcomes of topoisomerase reactions
Nucleic Acids Res., June 1, 2008; 36(11): 3515 - 3521.
[Abstract] [Full Text] [PDF]


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