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Articles 1111 - 1140 of 1368

Full-Text Articles in Applied Mathematics

A Spectral Approach To Protein Structure Alignment, Yosi Shibberu, Allen Holder Aug 2010

A Spectral Approach To Protein Structure Alignment, Yosi Shibberu, Allen Holder

Mathematical Sciences Technical Reports (MSTR)

We present two algorithms that use spectral methods to align protein folds. One of the algorithms is suitable for database searches, the other for difficult alignments. We present computational results for 780 pairwise alignments used to classify 40 proteins as well as results for a separate set of 36 protein alignments used for comparison to four other alignment algorithms. We also provide a mathematically rigorous development of the intrinsic geometry underlying our spectral approach.

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Latest Developments In Nonlinear Sciences, Syed T. Mohyud-Din, Ahmet Yildirim Aug 2010

Latest Developments In Nonlinear Sciences, Syed T. Mohyud-Din, Ahmet Yildirim

Applications and Applied Mathematics: An International Journal (AAM)

This paper outlines a detailed study of some latest trends and developments in nonlinear sciences. The major focus of our study will be variational iteration (VIM) and its modifications, homotopy perturbation (HPM), parameter expansion and exp-function methods. The above mentioned schemes are highly accurate, extraordinary efficient, capable to cope with the versatility of the physical problems and are being used to solve a wide class of nonlinear problems. Several examples are given which reveal the justification of our claim.

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On Numerical Solutions Of Two-Dimensional Boussinesq Equations By Using Adomian Decomposition And He's Homotopy Perturbation Method, Syed T. Mohyud-Din, Mustafa Inc, Ebru Cavlak Aug 2010

On Numerical Solutions Of Two-Dimensional Boussinesq Equations By Using Adomian Decomposition And He's Homotopy Perturbation Method, Syed T. Mohyud-Din, Mustafa Inc, Ebru Cavlak

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we obtain the approximate solution for 2-dimensional Boussinesq equation with initial condition by Adomian's decomposition and homotopy perturbation methods and numerical results are compared with exact solutions.

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A Note On He’S Parameter-Expansion Method Of Coupled Van Der Pol–Duffing Oscillators, N. H. Sweilam, M. M. Khader Aug 2010

A Note On He’S Parameter-Expansion Method Of Coupled Van Der Pol–Duffing Oscillators, N. H. Sweilam, M. M. Khader

Applications and Applied Mathematics: An International Journal (AAM)

This paper presents the analytical and approximate solutions of the coupled chaotic Van der Pol-Duffing systems, by using the He's parameter-expansion method (PEM). One iteration is sufficient to obtain a highly accurate solution, which is valid for the whole solution domain. From the obtained results, we can conclude that the suggest method, is of utter simplicity, and can be easily extended to all kinds of non-linear equations.

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Modified Variational Iteration Method For Second Order Initial Value Problems, Fazhan Geng Aug 2010

Modified Variational Iteration Method For Second Order Initial Value Problems, Fazhan Geng

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we introduce a modified variational iteration method for second order initial value problems by transforming the integral of iteration process. The main advantages of this modification are that it can overcome the restriction of the form of nonlinearity term in differential equations and improve the iterative speed of conventional variational iteration method. The method is applied to some nonlinear second order initial value problems and the numerical results reveal that the modified method is accurate and efficient for second order initial value problems.

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Homotopy Perturbation Method And The Stagnation Point Flow, P. Donald Ariel Aug 2010

Homotopy Perturbation Method And The Stagnation Point Flow, P. Donald Ariel

Applications and Applied Mathematics: An International Journal (AAM)

The laminar steady flow of an incompressible, viscous fluid near a stagnation point has been computed using the homotopy perturbation method (HPM). Both the cases, (i) two-dimensional flow and (ii) axisymmetric flow, have been considered. A sequence of successive approximations has been obtained in the solution, and the convergence of the sequence is achieved by using the Padé approximants. It is found that there is a complete agreement between the results obtained by the HPM and the exact numerical solution.

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Revised Variational Iteration Method For Solving Systems Of Ordinary Differential Equations, Elham Salehpoor, Hossein Jafari, Merieh A. Afrapoli Aug 2010

Revised Variational Iteration Method For Solving Systems Of Ordinary Differential Equations, Elham Salehpoor, Hossein Jafari, Merieh A. Afrapoli

Applications and Applied Mathematics: An International Journal (AAM)

A modification of the variational iteration method applied to systems of linear/non-linear ordinary differential equations, which yields a series solution with accelerated convergence, has been presented. Illustrative examples have been given.

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Elements Of Study On Dynamic Materials, Marine Rousseau, Gerard A. Maugin, Mihhail Berezovski Jul 2010

Elements Of Study On Dynamic Materials, Marine Rousseau, Gerard A. Maugin, Mihhail Berezovski

Publications

As a preliminary study to more complex situations of interest in small-scale technology, this paper envisages the elementary propagation properties of elastic waves in one-spatial dimension when some of the properties (mass density, elasticity) may vary suddenly in space or in time, the second case being of course more original. Combination of the two may be of even greater interest. Toward this goal, a critical examination of what happens to solutions at the crossing of pure space-like and time-like material discontinuities is given together with simple solutions for smooth transitions and numerical simulations in the discontinuous case. The effects on …

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Solutions Of Tenth And Ninth-Order Boundary Value Problems By Modified Variational Iteration Method, Syed Tauseef Mohyud-Din, Ahmet Yildirim Jun 2010

Solutions Of Tenth And Ninth-Order Boundary Value Problems By Modified Variational Iteration Method, Syed Tauseef Mohyud-Din, Ahmet Yildirim

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we apply the modified variational iteration method (MVIM) for solving the ninth and tenth-order boundary value problems. The proposed modification is made by introducing He’s polynomials in the correction functional. The suggested algorithm is quite efficient and is practically well suited for use in these problems. The proposed iterative scheme finds the solution without any discretization, linearization or restrictive assumptions. Several examples are given to verify the reliability and efficiency of the method. The fact that the proposed technique solves nonlinear problems without using the Adomian’s polynomials can be considered as a clear advantage of this algorithm …

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Application Of Homotopy Analysis Method To Fourth-Order Parabolic Partial Differential Equations, M. Matinfar, M. Saeidy Jun 2010

Application Of Homotopy Analysis Method To Fourth-Order Parabolic Partial Differential Equations, M. Matinfar, M. Saeidy

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, by means of the homotopy analysis method (HAM), the solutions of some fourthorder parabolic partial differential equations are exactly obtained in the form of convergent Taylor series. The HAM contains the auxiliary parameter h that provides a convenient way of controlling the convergent region of series solutions. This analytical method is employed to solve linear examples to obtain the exact solutions. The results reveal that the proposed method is very effective and simple.

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Wavelet Transform Of Fractional Integrals For Integrable Boehmians, Deshna Loonker, P. K. Banerji, S. L. Kalla Jun 2010

Wavelet Transform Of Fractional Integrals For Integrable Boehmians, Deshna Loonker, P. K. Banerji, S. L. Kalla

Applications and Applied Mathematics: An International Journal (AAM)

The present paper deals with the wavelet transform of fractional integral operator (the Riemann- Liouville operators) on Boehmian spaces. By virtue of the existing relation between the wavelet transform and the Fourier transform, we obtained integrable Boehmians defined on the Boehmian space for the wavelet transform of fractional integrals.

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Convergence Of The Sinc Method Applied To Volterra Integral Equations, M. Zarebnia, J. Rashidinia Jun 2010

Convergence Of The Sinc Method Applied To Volterra Integral Equations, M. Zarebnia, J. Rashidinia

Applications and Applied Mathematics: An International Journal (AAM)

A collocation procedure is developed for the linear and nonlinear Volterra integral equations, using the globally defined Sinc and auxiliary basis functions. We analytically show the exponential convergence of the Sinc collocation method for approximate solution of Volterra integral equations. Numerical examples are included to confirm applicability and justify rapid convergence of our method.

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Approximations Of Sturm-Liouville Eigenvalues Using Sinc-Galerkin And Differential Transform Methods, Marwan Taiseer Alquran, Kamel Al-Khaled Jun 2010

Approximations Of Sturm-Liouville Eigenvalues Using Sinc-Galerkin And Differential Transform Methods, Marwan Taiseer Alquran, Kamel Al-Khaled

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we present a comparative study of Sinc-Galerkin method and differential transform method to solve Sturm-Liouville eigenvalue problem. As an application, a comparison between the two methods for various celebrated Sturm-Liouville problems are analyzed for their eigenvalues and solutions. The study outlines the significant features of the two methods. The results show that these methods are very efficient, and can be applied to a large class of problems. The comparison of the methods shows that although the numerical results of these methods are the same, differential transform method is much easier, and more efficient than the Sinc-Galerkin method.

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Effects Of Radiation And Variable Viscosity On Mhd Free Convective Flow And Mass Transfer Over A Stretching Sheet With Chemical Reaction, M. A. Seddeek, A. A. Almushigeh Jun 2010

Effects Of Radiation And Variable Viscosity On Mhd Free Convective Flow And Mass Transfer Over A Stretching Sheet With Chemical Reaction, M. A. Seddeek, A. A. Almushigeh

Applications and Applied Mathematics: An International Journal (AAM)

A similarity solution is proposed for the analysis of steady free convection heat and mass transfer over a stretching sheet. The effect of radiation, chemical reaction and variable viscosity on hydromagnetic heat and mass transfer in the presence of magnetic field are investigated. The governing partial differential equations are transformed to the ordinary differential equations using similarity variables, and then solved numerically by means of the fourth-order Runge– Kutta method with shooting technique. A comparison with exact solution is performed and the results are found to be in excellent. Numerical results for the velocity, temperature and concentration as well as …

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An Algorithm To Generate Two-Dimensional Drawings Of Conway Algebraic Knots, Jen-Fu Tung May 2010

An Algorithm To Generate Two-Dimensional Drawings Of Conway Algebraic Knots, Jen-Fu Tung

Masters Theses & Specialist Projects

The problem of finding an efficient algorithm to create a two-dimensional embedding of a knot diagram is not an easy one. Typically, knots with a large number of crossings will not nicely generate two-dimensional drawings. This thesis presents an efficient algorithm to generate a knot and to create a nice two-dimensional embedding of the knot. For the purpose of this thesis a drawing is “nice” if the number of tangles in the diagram consisting of half-twists is minimal. More specifically, the algorithm generates prime, alternating Conway algebraic knots in O(n) time where n is the number of crossings …

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Seducing The Single Ticket Buyer: Converting Single Ticket Buyers To Subscribers At The Binghamton Philharmonic, Lauren F. Elicks Apr 2010

Seducing The Single Ticket Buyer: Converting Single Ticket Buyers To Subscribers At The Binghamton Philharmonic, Lauren F. Elicks

MPA Capstone Projects 2006 - 2015

Declining interests in classical music have left many performances based organizations scrambling to maintain subscriptions rates, ticket revenue and attendance. The Binghamton Philharmonic has a substantial single ticket buyer base which if converted to subscribers, would secure revenue and attendance to each season. This study explores the motivations and attendance levels of Binghamton Philharmonic single ticket buyer population. Using frequency distribution charts, cross-tabular analysis and independent samples t-tests, variables of motivation were compared to the single ticket and subscriber population.This project discusses the factors affecting single ticket buyer motivations for attendance, effective methods for encouraging greater attendance, and provides an …

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High Order Finite Elements For Lagrangian Computational Fluid Dynamics, Truman Everett Ellis Apr 2010

High Order Finite Elements For Lagrangian Computational Fluid Dynamics, Truman Everett Ellis

Master's Theses

A general finite element method is presented to solve the Euler equations in a Lagrangian reference frame. This FEM framework allows for separate arbitrarily high order representation of kinematic and thermodynamic variables. An accompanying hydrodynamics code written in Matlab is presented as a test-bed to experiment with various basis function choices. A wide range of basis function pairs are postulated and a few choices are developed further, including the bi-quadratic Q2-Q1d and Q2-Q2d elements. These are compared with a corresponding pair of low order bi-linear elements, traditional Q1-Q0 and sub-zonal pressure Q1-Q1d. Several test problems are considered including static convergence …

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Morphological Evolution Of Single-Crystal Ultrathin Solid Films, Mikhail Khenner Mar 2010

Morphological Evolution Of Single-Crystal Ultrathin Solid Films, Mikhail Khenner

Mathematics Faculty Publications

An introduction to mathematical modeling of ultrathin solid films and the role of such modeling in nanotechnologies: Educational presentation for senior physics majors

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Morphological Evolution Of Single-Crystal Ultrathin Solid Films, Mikhail Khenner Mar 2010

Morphological Evolution Of Single-Crystal Ultrathin Solid Films, Mikhail Khenner

Mathematics Faculty Publications

An introduction to mathematical modeling of ultrathin solid films and the role of such modeling in nanotechnologies: Educational/Research presentation for senior physics majors

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Screening And Sufficiency In Multiobjective Decision Problems With Large Alternative Sets, Michael D. Cote Mar 2010

Screening And Sufficiency In Multiobjective Decision Problems With Large Alternative Sets, Michael D. Cote

Theses and Dissertations

Portfolio selection problems with combinatorially-large alternative sets can be impossible to evaluate precisely on a reasonable timescale. When portfolios require complex modeling for performance assessment, prohibitive computational processing times can result. Eliminating a small number of alternatives through an intelligent screening process can greatly reduce the number of alternative combinations, thereby decreasing a problem's evaluation time and cost. A methodology was developed for the class of hierarchical portfolio selection problems in which multiple objectives are all judged on the same sub-objectives. First, a novel capability-based alternative screening process was devised to identify and remove poor alternatives, thereby reducing the number …

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Fast Protein Structure Alignment, Yosi Shibberu, Allen Holder, Kyla Lutz Feb 2010

Fast Protein Structure Alignment, Yosi Shibberu, Allen Holder, Kyla Lutz

Mathematical Sciences Technical Reports (MSTR)

We address the problem of aligning the 3D structures of two proteins. Our pairwise comparisons are based on a new optimization model that is succinctly expressed in terms of linear transformations and highlights the problem’s intrinsic geometry. The optimization problem is approximately solved with a new polynomial time algorithm. The worst case analysis of the algorithm shows that the solution is bounded by a constant depending only on the data of the problem.

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Oscillatory And Monotonic Modes Of Long-Wave Marangoni Convection In A Thin Film, Sergey Shklyaev, Mikhail Khenner, Alexei Alabuzhev Jan 2010

Oscillatory And Monotonic Modes Of Long-Wave Marangoni Convection In A Thin Film, Sergey Shklyaev, Mikhail Khenner, Alexei Alabuzhev

Mathematics Faculty Publications

We study long-wave Marangoni convection in a layer heated from below. Using the scaling k=O Bi, where k is the wave number and Bi is the Biot number, we derive a set of amplitude equations. Analysis of this set shows presence of monotonic and oscillatory modes of instability. Oscillatory mode has not been previously found for such direction of heating. Studies of weakly nonlinear dynamics demonstrate that stable steady and oscillatory patterns can be found near the stability threshold.

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Oscillatory And Monotonic Modes Of Long-Wave Marangoni Convection In A Thin Film, Sergey Shklyaev, Mikhail Khenner, Alexei Alabuzhev Jan 2010

Oscillatory And Monotonic Modes Of Long-Wave Marangoni Convection In A Thin Film, Sergey Shklyaev, Mikhail Khenner, Alexei Alabuzhev

Mathematics Faculty Publications

We study long-wave Marangoni convection in a layer heated from below. Using the scaling k=O Bi, where k is the wave number and Bi is the Biot number, we derive a set of amplitude equations. Analysis of this set shows presence of monotonic and oscillatory modes of instability. Oscillatory mode has not been previously found for such direction of heating. Studies of weakly nonlinear dynamics demonstrate that stable steady and oscillatory patterns can be found near the stability threshold.

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A Generalized Nonlinear Model For The Evolution Of Low Frequency Freak Waves, Jonathan Blackledge Jan 2010

A Generalized Nonlinear Model For The Evolution Of Low Frequency Freak Waves, Jonathan Blackledge

Articles

This paper presents a generalized model for simulating wavefields associated with the sea surface. This includes the case when `freak waves' may occur through an effect compounded in the nonlinear (cubic) Schrodinger equation. After providing brief introductions to linear sea wave models, `freak waves' and the linear and nonlinear Schrodinger equations, we present a unified model that provides for a piecewise continuous transition from a linear to a nonlinear state. This is based on introducing a fractional time derivative to develop a fractional nonlinear partial differential equation with a stochastic source function. In order to explore the characteristics of this …

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From Energy Gradient And Natural Selection To Biodiversity And Stability Of Ecosystems, Bo Deng Jan 2010

From Energy Gradient And Natural Selection To Biodiversity And Stability Of Ecosystems, Bo Deng

Department of Mathematics: Faculty Publications

The purpose of this paper is to incorporate well-established ecological principles into a foodweb model consisting of four trophic levels --- abiotic resources, plants, herbivores, and carnivores. The underlining principles include Kimura's neutral theory of genetic evolution, Liebig's Law of the Minimum for plant growth, Holling's functionals for herbivore foraging and carnivore predation, the One-Life Rule for all organisms, and Lotka-Volterra's model for intraand interspecific competitions. Numerical simulations of the model led to the following statistical findings: (a) particular foodwebs can give contradicting observations on biodiversity and productivity, in particular, all known functional forms -- - positive, negative, sigmoidal, and …

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Parallel And Distributed Simulation Of Parabolic And Telegraphic Equations., Ewedafe Simon Uzezi Jan 2010

Parallel And Distributed Simulation Of Parabolic And Telegraphic Equations., Ewedafe Simon Uzezi

Student Works (2010-2019)

In this thesis, a parallel implementation of explicit/implicit parallel algorithms such as the stationary iterative methods and the class of iterating alternating methods which includes: Alternating Direction Implicit (ADI), Iterative Alternating Direction Explicit (IADE), for D’Yakonov (IADE-DY), Double sweep Mitchell and Fairweather (MF-DS) and Alternating Group Explicit (AGE) method for solving 1-Dimensional (1-D), 2-Dimensional (2-D) Parabolic (special examples including 1-D, 2-D Bio-Heat Equation) and 1-D, 2-D and 3-D Telegraphic Equations on a distributed environment of Message Passing Interface (MPI) and Parallel Virtual Machine (PVM) platform is presented. To correlate the communication activity with computation, we counted events between significant MPI/PVM …

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Matrix Singular Value Decomposition, Petero Kwizera Jan 2010

Matrix Singular Value Decomposition, Petero Kwizera

UNF Graduate Theses and Dissertations

This thesis starts with the fundamentals of matrix theory and ends with applications of the matrix singular value decomposition (SVD). The background matrix theory coverage includes unitary and Hermitian matrices, and matrix norms and how they relate to matrix SVD. The matrix condition number is discussed in relationship to the solution of linear equations. Some inequalities based on the trace of a matrix, polar matrix decomposition, unitaries and partial isometies are discussed. Among the SVD applications discussed are the method of least squares and image compression. Expansion of a matrix as a linear combination of rank one partial isometries is …

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Multiresolution Inverse Wavelet Reconstruction From A Fourier Partial Sum, Nataniel Greene Jan 2010

Multiresolution Inverse Wavelet Reconstruction From A Fourier Partial Sum, Nataniel Greene

Publications and Research

The Gibbs phenomenon refers to the lack of uniform convergence which occurs in many orthogonal basis approximations to piecewise smooth functions. This lack of uniform convergence manifests itself in spurious oscillations near the points of discontinuity and a low order of convergence away from the discontinuities.In previous work [11,12] we described a numerical procedure for overcoming the Gibbs phenomenon called the Inverse Wavelet Reconstruction method (IWR). The method takes the Fourier coefficients of an oscillatory partial sum and uses them to construct the wavelet coefficients of a non-oscillatory wavelet series. However, we only described the method standard wavelet series and …

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Waves In Materials With Microstructure: Numerical Simulation, Mihhail Berezovski, Arkadi Berezovski, Juri Engelbrecht Jan 2010

Waves In Materials With Microstructure: Numerical Simulation, Mihhail Berezovski, Arkadi Berezovski, Juri Engelbrecht

Publications

Results of numerical experiments are presented in order to compare direct numerical calculations of wave propagation in a laminate with prescribed properties and corresponding results obtained for an effective medium with the microstructure modelling. These numerical experiments allowed us to analyse the advantages and weaknesses of the microstructure model.

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Temporal Scales For Transport Patterns In The Gulf Of Finland, Bert Viikmae, Tarmo Soomere, Mikk Viidebaum, Mihhail Berezovski Jan 2010

Temporal Scales For Transport Patterns In The Gulf Of Finland, Bert Viikmae, Tarmo Soomere, Mikk Viidebaum, Mihhail Berezovski

Publications

The basic time scales for current-induced net transport of surface water and associated time scales of reaching the nearshore in the Gulf of Finland, the Baltic Sea, are analysed based on Lagrangian trajectories of water particles reconstructed from three-dimensional velocity fields by the Rossby Centre circulation model for 1987–1991. The number of particles reaching the nearshore exhibits substantial temporal variability whereas the rate of leaving the gulf is almost steady. It is recommended to use an about 3 grid cells wide nearshore area as a substitute to the coastal zone and about 10–15 day long trajectories for calculations of the …

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