Unzipping of DNA with correlated base sequence.

@article{Allahverdyan2004UnzippingOD,
  title={Unzipping of DNA with correlated base sequence.},
  author={Armen E. Allahverdyan and Zh. S. Gevorkian and Chin-Kun Hu and Ming-Chya Wu},
  journal={Physical review. E, Statistical, nonlinear, and soft matter physics},
  year={2004},
  volume={69 6 Pt 1},
  pages={
          061908
        }
}
We consider force-induced unzipping transition for a heterogeneous DNA model with a correlated base sequence. Both finite-range and long-range correlated situations are considered. It is shown that finite-range correlations increase stability of DNA with respect to the external unzipping force. Due to long-range correlations the number of unzipped base pairs displays two widely different scenarios depending on the details of the base sequence: either there is no unzipping phase transition at… 
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16 Citations
Background Citations
3
Methods Citations
2

16 Citations

Force induced unzipping of DNA with long range correlated noise

We derive and solve a Fokker–Planck equation for the stationary distribution of the free energy, in a model of unzipping of double-stranded DNA under external force. The autocorrelation function of…

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In the presence of an attractive surface near DNA, the phase diagram gets modified drastically and shows richer surprises including a critical end point and a triple point.

Thermodynamic relations for DNA phase transitions

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  • Physics
    Journal of physics. Condensed matter : an Institute of Physics journal
  • 2010
It is proposed here that a softening of the zipped-unzipped interface at the fork results in the front propagating towards the unzipped side.

Impacts of magnesium ions on the unzipping of λ-phage DNA

We used magnetic tweezers to exert a constant force to separate double stranded λ-phage DNA as a function of temperature and buffer content. The separation was performed at temperatures ranging from…

Two Pinning Models with Markov disorder

Disordered pinning models deal with the (de)localization tran- sition of a polymer in interaction with a heterogeneous interface. In this paper, we focus on two models where the inhomogeneities at…

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Pinning of a polymer on a disordered line with finite range correlations: the annealed critical curve

This paper focuses on directed polymers pinned at a disordered and correlated interface. We assume that the disorder sequence is a q-order moving average and show that the critical curve of the…

Statistical mechanics of quasispecies theories of molecular evolution

This thesis presents a statistical mechanical analysis of different formulations of quasispecies theory of molecular evolution, characterized by two different families of models, the Crow-Kimura and the Eigen model, which constitute a microscopic description of evolution.

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