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  1. 1 Open Physics

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  1. 1 2010

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  1. 1 Gunnarsson A.

  2. 1 Höök F.

  3. 1 Zhdanov V.

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Simulation of dissociation of DNA duplexes attached to the surface

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Zhdanov V., Gunnarsson A., Höök F.
Open Physics
|
2010
|
vol. 8
|
issue 6
883-892
EN
We present Monte Carlo simulations of dissociation of duplexes formed of complementary single-stranded DNAs with one of the strands attached to the surface. To describe the transition from the bound state to the unbound state of two strands located nearby, we use a lattice model taking DNA base-pair interactions and comformational changes into account. The results obtained are employed as a basis for a more coarse-grained model including strand backward association and diffusion resulting in complete dissociation. The distribution of the dissociation time is found to be exponential. This finding indicates that the non-exponential kinetic features observed in the corresponding experiments seem to be related to extrinsic factors, e.g., to the surface heterogeneity.
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