Dynamical modeling of molecular constructions and setups for DNA unzipping

Carlo Barbieri; Simona Cocco; Rémi Monasson; Francesco Zamponi

doi:10.1088/1478-3975/6/2/025003

Dynamical modeling of molecular constructions and setups for DNA unzipping

Carlo Barbieri
, Simona Cocco
, Rémi Monasson
, Francesco Zamponi

École Polytechnique

Sorbonne Université

Research output: Contribution to journal › Article › peer-review

Abstract

We present a dynamical model of DNA mechanical unzipping under the action of a force. The model includes the motion of a fork in a sequence-dependent landscape, the trap(s) acting on the bead(s) and the polymeric components of the molecular construction (unzipped single strands of DNA and linkers). Different setups are considered to test the model, and the outcome of the simulations is compared to simpler dynamical models existing in the literature where polymers are assumed to be at equilibrium.

Original language	English
Article number	025003
Journal	Physical Biology
Volume	6
Issue number	2
DOIs	https://doi.org/10.1088/1478-3975/6/2/025003
Publication status	Published - 1 Jan 2009

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abstract = "We present a dynamical model of DNA mechanical unzipping under the action of a force. The model includes the motion of a fork in a sequence-dependent landscape, the trap(s) acting on the bead(s) and the polymeric components of the molecular construction (unzipped single strands of DNA and linkers). Different setups are considered to test the model, and the outcome of the simulations is compared to simpler dynamical models existing in the literature where polymers are assumed to be at equilibrium.",

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Dynamical modeling of molecular constructions and setups for DNA unzipping

Abstract

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