Formação e estabilidade de Breathers no modelo de Peyrard-Bishop para o DNA

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

A Model Coupling Vibrational and Rotational Motion for the DNA Molecule

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Estudo da dinâmica do modelo de Peyrard-Bishop não homogêneo para o DNA

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Analysis of Lattice Size, Energy Density and Denaturation for a One-Dimensional DNA Model

There are several mechanical models to describe the DNA phenomenology. In this work the DNA denaturation is stu- died under thermodynamical and dynamical point of view using the well known Peyrard-Bishop model. The thermody-namics analysis using the transfer integral operator method is briefly reviewed. In particular, the lattice size is discussed and a conjecture about the minimum energy to denaturation is proposed. In terms of the dynamical aspects of the model, the equations of motion for the system are integrated and the results determine the energy density where the denatura- tion occurs. The behavior of the lattice near the phase transition is analyzed. The relation between the thermodynamical and dynamical results is discussed.

Stability of breathers in simple mechanical models for DNA

This work studies through the Floquet theory the stability of breathers generated by the anti-continuous limit. We used the Peyrard-Bishop model for DNA and two kinds of nonlinear potential: the Morse potential and a potential with a hump. The comparison of their stability was done in function of the coupling parameter. We also investigate the dynamic behaviour of the system in stable and unstable regions. Qualitatively, the dynamic of mobile breathers resembles DNA.

Thermodynamic analysis of a non linear lattice

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Uso de uma rede unidimensional harmônica com o potencial de Rosen-Morse on site para modelar o DNA

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Modelo dinâmico e estatístico aplicado a transição de fase

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Modelos mecânicos para o estudo da dinâmica do DNA

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Energy localization in the Peyrard-Bishop DNA model

We study energy localization on the oscillator chain proposed by Peyrard and Bishop to model DNA. We search numerically for conditions with initial energy in a small subgroup of consecutive oscillators of a finite chain and such that the oscillation amplitude is small outside this subgroup on a long time scale. We use a localization criterion based on the information entropy and verify numerically that such localized excitations exist when the nonlinear dynamics of the subgroup oscillates with a frequency inside the reactive band of the linear chain. We predict a mimium value for the Morse parameter (mu>2.25) (the only parameter of our normalized model), in agreement with the numerical calculations (an estimate for the biological value is mu=6.3). For supercritical masses, we use canonical perturbation theory to expand the frequencies of the subgroup and we calculate an energy threshold in agreement with the numerical calculations.

Application of the modified Cam-Clay model to a residual soil

The modified Cam - Clay model was used to model experimental results of a saturated residual sandy soil from Sao Carlos - SP. Triaxial compression tests were performed using Bishop - Wesley cell with internal transducers to measure axial and radial strains. It was observed that the model fairly fitted experimental results, specially the principal stress difference at critical state. In general it was observed a good qualitative agreement between experimental and predicted strain values, considering compression or expansion of the samples. However, in all the stress path used, but 100 degrees and 140 degrees, the model yielded strains larger than that measured in the tests.