Reconstruction of DNA sequences using genetic algorithms and cellular automata: Towards mutation prediction?

C Mizas, GC Sirakoulis, V Mardiris, I Karafyllidis… - Biosystems, 2008 - Elsevier
Change of DNA sequence that fuels evolution is, to a certain extent, a deterministic process
because mutagenesis does not occur in an absolutely random manner. So far, it has not …

Moving breathers in a DNA model with competing short-and long-range dispersive interactions

J Cuevas, JFR Archilla, YB Gaididei… - Physica D: Nonlinear …, 2002 - Elsevier
Moving breathers is a means of transmitting information in DNA. We study the existence and
properties of moving breathers in a DNA model with short-range interaction, due to the …

A cellular automaton model for the study of DNA sequence evolution

GC Sirakoulis, I Karafyllidis, C Mizas, V Mardiris… - Computers in biology …, 2003 - Elsevier
Cellular automata are introduced as a model for DNA structure, function and evolution. DNA
is modeled as a one-dimensional cellular automaton with four states per cell. These states …

Breather trapping and breather transmission in a DNA model with an interface

A Alvarez, FR Romero, JFR Archilla, J Cuevas… - The European Physical …, 2006 - Springer
We study the dynamics of moving discrete breathers in an interfaced piecewise DNA
molecule. This is a DNA chain in which all the base pairs are identical and there exists an …

Rich example of geometrically induced nonlinearity: From rotobreathers and kinks to moving localized modes and resonant energy transfer

PG Kevrekidis, SV Dmitriev, S Takeno, AR Bishop… - Physical Review E …, 2004 - APS
We present an experimentally realizable, simple mechanical system with linear interactions
whose geometric nature leads to nontrivial, nonlinear dynamical equations. The equations …

Forward and backward propagating breathers in a DNA model with dipole-dipole long-range interactions

CL Gninzanlong, FT Ndjomatchoua, C Tchawoua - Physical Review E, 2020 - APS
The present study explores the existence and orbital stability of discrete bright breathers
through the Joyeux-Buyukdagli DNA model incorporating long-range interactions (LRIs) …

Moving breathers in a bent DNA model

J Cuevas, F Palmero, JFR Archilla, FR Romero - Physics Letters A, 2002 - Elsevier
We study the properties of moving breathers in a bent DNA model with short range
interaction, due to the stacking of the base pairs, and long range interaction, due to the finite …

[PDF][PDF] Traveling pulses for the Klein-Gordon equation on a lattice or continuum with long-range interaction

PW Bates, C Zhang - Discrete and Continuous Dynamical Systems, 2006 - researchgate.net
We study traveling pulses on a lattice and in a continuum where all pairs of particles interact,
contributing to the potential energy. The interaction may be positive or negative, depending …

Dark breathers in Klein-Gordon lattices. Band analysis of their stability properties

A Alvarez, JFR Archilla, J Cuevas… - New Journal of …, 2002 - iopscience.iop.org
Discrete bright breathers are well known phenomena. They are localized excitations that
consist of a few excited oscillators in a lattice and the rest of them having very small …

Escape dynamics in the discrete repulsive ϕ4 model

V Achilleos, A Álvarez, J Cuevas… - Physica D: Nonlinear …, 2013 - Elsevier
We study deterministic escape dynamics of the discrete Klein–Gordon model with a
repulsive quartic on-site potential. Using a combination of analytical techniques, based on …