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Two algorithms based on Markov chains and their application to recognition of protein coding genes in prokaryotic genomes

Małgorzata Grabińska, Paweł Błażej, Paweł Mackiewicz (2013)

Applicationes Mathematicae

Methods based on the theory of Markov chains are most commonly used in the recognition of protein coding sequences. However, they require big learning sets to fill up all elements in transition probability matrices describing dependence between nucleotides in the analyzed sequences. Moreover, gene prediction is strongly influenced by the nucleotide bias measured by e.g. G+C content. In this paper we compare two methods: (i) the classical GeneMark algorithm, which uses a three-periodic non-homogeneous...

Uniqueness and local existence of solutions to an approximate system of a 1D simplified tumor invasion model

Maciej Cytowski, Akio Ito, Marek Niezgódka (2009)

Banach Center Publications

In the present paper, we consider an approximate system of one-dimensional simplified tumor invasion model, which was originally proposed by Chaplain and Anderson in [chaplain-anderson-03]. The simplified tumor invasion model is composed of PDE and ODE. Actually, the PDE is the balance equation of the density of tumor cells and the ODE describes the dynamics of concentration of extracellular matrix. In this model, we take into account that the random motility of the density of tumor cells is given...

Uniqueness and stability properties of monostable pulsating fronts

François Hamel, Lionel Roques (2011)

Journal of the European Mathematical Society

We prove the uniqueness, up to shifts, of pulsating traveling fronts for reaction-diffusion equations in periodic media with Kolmogorov–Petrovskiĭ–Piskunov type nonlinearities. These results provide in particular a complete classification of all KPP pulsating fronts. Furthermore, in the more general case of monostable nonlinearities, we also derive several global stability properties and convergence to pulsating fronts for solutions of the Cauchy problem with front-like initial data. In particular,...

Uniqueness of limit cycles bounded by two invariant parabolas

Eduardo Sáez, Iván Szántó (2012)

Applications of Mathematics

In this paper we consider a class of cubic polynomial systems with two invariant parabolas and prove in the parameter space the existence of neighborhoods such that in one the system has a unique limit cycle and in the other the system has at most three limit cycles, bounded by the invariant parabolas.

Usefulness of Biocontrol of Pests in Tea: A Mathematical Model

A. Maiti, A. K. Pal, G. P. Samanta (2008)

Mathematical Modelling of Natural Phenomena

Nowadays there has been a growing consciousness among the tea industry to reduce the use of the chemical pesticides for pest control. Predators are beneficial insects that feed on harmful insects and mites, which incur considerable loss of production of tea. In this paper we have considered a tritrophic model consisting of tea plant, pest and predator to analyze different field observations. The effect of discrete time-delay on the tritrophic model is studied critically. The dynamical behaviours...

Verified solution method for population epidemiology models with uncertainty

Joshua A. Enszer, Mark A. Stadtherr (2009)

International Journal of Applied Mathematics and Computer Science

Epidemiological models can be used to study the impact of an infection within a population. These models often involve parameters that are not known with certainty. Using a method for verified solution of nonlinear dynamic models, we can bound the disease trajectories that are possible for given bounds on the uncertain parameters. The method is based on the use of an interval Taylor series to represent dependence on time and the use of Taylor models to represent dependence on uncertain parameters...

Von Bertalanffy's growth dynamics with strong Allee effect

J. Leonel Rocha, Sandra M. Aleixo (2012)

Discussiones Mathematicae Probability and Statistics

Von Bertalanffy’s model is one of the most popular differential equation used in order to study the increase in average length or weight of fish. However, this model does not include demographic Allee effect. This phenomenon is known in the fisheries literature as “depensation”, which arises when populations decline rapidly at low densities. In this paper we develop and investigate new corrected von Bertalanffy’s models with Allee effects. The generalization that we propose results from considering...

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