Search results for: Fluid Structure Interaction (FSI)
Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 4215

Search results for: Fluid Structure Interaction (FSI)

4065 Topology of Reverse Von-Kármán Vortex Street in the Wake of a Swimming Whale Shark

Authors: Arash Taheri

Abstract:

In this paper, effects of the ventral body planform of a swimming whale shark on the formation of ‘reverse von-Kármán vortex street’ behind the aquatic animal are studied using Fluid-Structure Interaction (FSI) approach. In this regard, incompressible Navier-Stokes equations around the whale shark’s body with a prescribed deflection dynamics are solved with the aid of Boundary Data Immersion Method (BDIM) and Implicit Large Eddy Simulation (ILES) turbulence treatment by WaterLily.jl solver; fully-written in Julia programming language. The whale shark flow simulations here are performed at high Reynolds number, i.e. 1.4 107 corresponding to the swimming of a 10 meter-whale shark at an average speed of 5 km/h. For comparison purposes, vortical flow generation behind a silky shark with a streamlined forehead eidonomy is also simulated at high Reynolds number, Re = 2 106, corresponding to the swimming of a 2 meter-silky shark at an average speed of 3.6 km/h. The results depict formation of distinct wake topologies behind the swimming sharks depending on the travelling wave oscillating amplitudes.

Keywords: Whale shark, vortex street, BDIM, FSI, functional eidonomy, bionics.

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4064 Energy-Level Structure of a Confined Electron-Positron Pair in Nanostructure

Authors: Tokuei Sako, Paul-Antoine Hervieux

Abstract:

The energy-level structure of a pair of electron and positron confined in a quasi-one-dimensional nano-scale potential well has been investigated focusing on its trend in the small limit of confinement strength ω, namely, the Wigner molecular regime. An anisotropic Gaussian-type basis functions supplemented by high angular momentum functions as large as l = 19 has been used to obtain reliable full configuration interaction (FCI) wave functions. The resultant energy spectrum shows a band structure characterized by ω for the large ω regime whereas for the small ω regime it shows an energy-level pattern dominated by excitation into the in-phase motion of the two particles. The observed trend has been rationalized on the basis of the nodal patterns of the FCI wave functions. 

Keywords: Confined systems, positron, wave function, Wigner molecule, quantum dots.

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4063 Magnetic Properties of NiO and MnO by LSDA+U

Authors: Chewa Thassana, Wicharn Techitdheera

Abstract:

The spin (ms) and orbital (mo) magnetic moment of the antiferromagnetic NiO and MnO have been studied in the local spin density approximation (LSDA+U) within full potential linear muffin-tin orbital (FP-LMTO method with in the coulomb interaction U varying from 0 to 10eV, exchange interaction J, from 0 to 1.0eV, and volume compression VC in range of 0 to 80%. Our calculated results shown that the spin magnetic moments and the orbital magnetic moments increase linearly with increasing U and J. While the interesting behaviour appears when volume compression is greater than 70% for NiO and 50% for MnO at which ms collapses. Further increase of volume compression to be at 80% leads to the disappearance of both magnetic moments.

Keywords: spin-orbital magnetic moment, Coulomb interaction U and exchange interaction J, volume compression VC, LSDA+U.

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4062 Study and Evaluation of Added Stresses under Foundation due to Adjacent Structure

Authors: Alireza M. goltabar, Issa shooshpasha , Reza Shamstabar kami , Mostafa Habibi

Abstract:

Added stresses due to adjacent structure should be considered in foundation design and stress control in soil under the structure. This case is considered less than other cases in design and calculation whereas stresses in implementation are greater than analytical stress. Structure load are transmitted to earth by foundation and role of foundation is propagation of load on the continuous and half extreme soil. This act cause that, present stresses lessen to allowable strength of soil. Some researchers such as Boussinesq and westergaurd by using of some assumption studied on this issue, theorically. Target of this paper is study and evaluation of added stresses under structure due to adjacent structure. For this purpose, by using of assumption, theoric relation and numeral methods, effects of adjacent structure with 4 to 10 storeys on the main structure with 4 storeys are studied and effect of parameters and sensitivity of them are evaluated.

Keywords: stress, soil, adjacent structure, foundation, loading.

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4061 Wind Interference Effect on Tall Building

Authors: Atul K. Desai, Jigar K. Sevalia, Sandip A. Vasanwala

Abstract:

When a building is located in an urban area, it is exposed to a wind of different characteristics then wind over an open terrain. This is development of turbulent wake region behind an upstream building. The interaction with upstream building can produce significant changes in the response of the tall building. Here, in this paper, an attempt has been made to study wind induced interference effects on tall building. In order to study wind induced interference effect (IF) on Tall Building, initially a tall building (which is termed as Principal Building now on wards) with square plan shape has been considered with different Height to Width Ratio and total drag force is obtained considering different terrain conditions as well as different incident wind direction. Then total drag force on Principal Building is obtained by considering adjacent building which is termed as Interfering Building now on wards with different terrain conditions and incident wind angle. To execute study, Computational Fluid Dynamics (CFD) Code namely Fluent and Gambit have been used.

Keywords: Computational Fluid Dynamics, Tall Building, Turbulent, Wake Region, Wind.

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4060 A Safety Analysis Method for Multi-Agent Systems

Authors: Ching Louis Liu, Edmund Kazmierczak, Tim Miller

Abstract:

Safety analysis for multi-agent systems is complicated by the, potentially nonlinear, interactions between agents. This paper proposes a method for analyzing the safety of multi-agent systems by explicitly focusing on interactions and the accident data of systems that are similar in structure and function to the system being analyzed. The method creates a Bayesian network using the accident data from similar systems. A feature of our method is that the events in accident data are labeled with HAZOP guide words. Our method uses an Ontology to abstract away from the details of a multi-agent implementation. Using the ontology, our methods then constructs an “Interaction Map,” a graphical representation of the patterns of interactions between agents and other artifacts. Interaction maps combined with statistical data from accidents and the HAZOP classifications of events can be converted into a Bayesian Network. Bayesian networks allow designers to explore “what it” scenarios and make design trade-offs that maintain safety. We show how to use the Bayesian networks, and the interaction maps to improve multi-agent system designs.

Keywords: Multi-agent system, safety analysis, safety model.

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4059 Design of Experiment and Computational Fluid Dynamics Used to Optimize Hydrodynamic Characteristics of the Marine Propeller

Authors: Rohit Suryawanshi

Abstract:

In this study, the commercial Computational Fluid Dynamics (CFD), ANSYS-Fluent, has been used to optimize the marine propeller with the design of experiment (DOE) method. At the initial stage, different propeller parameters ware selected for the three different levels. The four characteristics factors are: no. of the blade, camber value, pitch delta & chord at the hub. Then, CAD modelling is performed by considering the selected factor and level. In this investigation, a total of 9 test models are simulated with the Reynolds-Averaged Navier-Stokes (RANS) equations. The standard, realizable

Keywords: Marine propeller, Computational Fluid Dynamics, optimization, DOE, propeller thrust.

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4058 Micropolar Fluids Effects on the Dynamic Characteristics of Four-lobe Journal Bearing

Authors: B. Chetti

Abstract:

Dynamic characteristics of a four-lobe journal bearing of micropolar fluids are presented. Lubricating oil containing additives and contaminants is modelled as micropolar fluid. The modified Reynolds equation is obtained using the micropolar lubrication theory and solving it by using finite difference technique. The dynamic characteristics in terms of stiffness, damping coefficients, the critical mass and whirl ratio are determined for various values of size of material characteristic length and the coupling number. The results show compared with Newtonian fluids, that micropolar fluid exhibits better stability.

Keywords: Four-lobe bearings, dynamic characteristics, stabilityanalysis, micropolar fluid

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4057 Vortex-Induced Vibration Characteristics of an Elastic Circular Cylinder

Authors: T. Li, J.Y. Zhang, W.H. Zhang, M.H. Zhu

Abstract:

A numerical simulation of vortex-induced vibration of a 2-dimensional elastic circular cylinder with two degree of freedom under the uniform flow is calculated when Reynolds is 200. 2-dimensional incompressible Navier-Stokes equations are solved with the space-time finite element method, the equation of the cylinder motion is solved with the new explicit integral method and the mesh renew is achieved by the spring moving mesh technology. Considering vortex-induced vibration with the low reduced damping parameter, the variety trends of the lift coefficient, the drag coefficient, the displacement of cylinder are analyzed under different oscillating frequencies of cylinder. The phenomena of locked-in, beat and phases-witch were captured successfully. The evolution of vortex shedding from the cylinder with time is discussed. There are very similar trends in characteristics between the results of the one degree of freedom cylinder model and that of the two degree of freedom cylinder model. The streamwise vibrations have a certain effect on the lateral vibrations and their characteristics.

Keywords: Fluid-structure interaction, Navier-Stokes equation, Space-time finite element method, vortex-induced vibration.

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4056 Structural-Geotechnical Effects of the Foundation of a Medium-Height Structure

Authors: V. Rodas, L. Almache

Abstract:

The interaction effects between the existing soil and the substructure of a 5-story building with an underground one, were evaluated in such a way that the structural-geotechnical concepts were validated through the method of impedance factors with a program based on the method of the finite elements. The continuous wall-type foundation had a constant thickness and followed inclined and orthogonal directions, while the ground had homogeneous and medium-type characteristics. The soil considered was type C according to the Ecuadorian Construction Standard (NEC) and the corresponding foundation comprised a depth of 4.00 meters and a basement wall thickness of 40 centimeters. This project is part of a mid-rise building in the city of Azogues (Ecuador). The hypotheses raised responded to the objectives in such a way that the model implemented with springs had a variation with respect to the embedded base, obtaining conservative results.

Keywords: interaction, soil, substructure, springs, effects, modeling, embedment

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4055 Numerical Simulation of the Liquid-Vapor Interface Evolution with Material Properties

Authors: Kimou Kouadio Prosper, Souleymane Oumtanaga, Tety Pierre, Adou Kablan Jérôme

Abstract:

A satured liquid is warmed until boiling in a parallelepipedic boiler. The heat is supplied in a liquid through the horizontal bottom of the boiler, the other walls being adiabatic. During the process of boiling, the liquid evaporates through its free surface by deforming it. This surface which subdivides the boiler into two regions occupied on both sides by the boiled liquid (broth) and its vapor which surmounts it. The broth occupying the region and its vapor the superior region. A two- fluids model is used to describe the dynamics of the broth, its vapor and their interface. In this model, the broth is treated as a monophasic fluid (homogeneous model) and form with its vapor adiphasic pseudo fluid (two-fluid model). Furthermore, the interface is treated as a zone of mixture characterized by superficial void fraction noted α* . The aim of this article is to describe the dynamics of the interface between the boiled fluid and its vapor within a boiler. The resolution of the problem allowed us to show the evolution of the broth and the level of the liquid.

Keywords: Two-fluid models, homogeneous model, interface, averaged equations, Jumps conditions, void fraction.

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4054 Computational Investigation of Air-Gas Venturi Mixer for Powered Bi-Fuel Diesel Engine

Authors: Mofid Gorjibandpy, Mehdi Kazemi Sangsereki

Abstract:

In a bi-fuel diesel engine, the carburetor plays a vital role in switching from fuel gas to petrol mode operation and viceversa. The carburetor is the most important part of the fuel system of a diesel engine. All diesel engines carry variable venturi mixer carburetors. The basic operation of the carburetor mainly depends on the restriction barrel called the venturi. When air flows through the venturi, its speed increases and its pressure decreases. The main challenge focuses on designing a mixing device which mixes the supplied gas is the incoming air at an optimum ratio. In order to surmount the identified problems, the way fuel gas and air flow in the mixer have to be analyzed. In this case, the Computational Fluid Dynamics or CFD approach is applied in design of the prototype mixer. The present work is aimed at further understanding of the air and fuel flow structure by performing CFD studies using a software code. In this study for mixing air and gas in the condition that has been mentioned in continuance, some mixers have been designed. Then using of computational fluid dynamics, the optimum mixer has been selected. The results indicated that mixer with 12 holes can produce a homogenous mixture than those of 8-holes and 6-holes mixer. Also the result showed that if inlet convergency was smoother than outlet divergency, the mixture get more homogenous, the reason of that is in increasing turbulence in outlet divergency.

Keywords: Computational Fluid Dynamics, Venturi mixer, Air-fuel ratio, Turbulence.

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4053 Experimental Study on Dehumidification Performance of Supersonic Nozzle

Authors: Esam Jassim

Abstract:

Supersonic nozzles are commonly used to purify natural gas in gas processing technology. As an innovated technology, it is employed to overcome the deficit of the traditional method, related to gas dynamics, thermodynamics and fluid dynamics theory. An indoor test rig is built to study the dehumidification process of moisture fluid. Humid air was chosen for the study. The working fluid was circulating in an open loop, which had provision for filtering, metering, and humidifying. A stainless steel supersonic separator is constructed together with the C-D nozzle system. The result shows that dehumidification enhances as NPR increases. This is due to the high intensity in the turbulence caused by the shock formation in the divergent section. Such disturbance strengthens the centrifugal force, pushing more particles toward the near-wall region. In return return, the pressure recovery factor, defined as the ratio of the outlet static pressure of the fluid to its inlet value, decreases with NPR.

Keywords: Supersonic nozzle, dehumidification, particle separation, geometry.

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4052 Unsteady Boundary Layer Flow over a Stretching Sheet in a Micropolar Fluid

Authors: Roslinda Nazar, Anuar Ishak, Ioan Pop

Abstract:

Unsteady boundary layer flow of an incompressible micropolar fluid over a stretching sheet when the sheet is stretched in its own plane is studied in this paper. The stretching velocity is assumed to vary linearly with the distance along the sheet. Two equal and opposite forces are impulsively applied along the x-axis so that the sheet is stretched, keeping the origin fixed in a micropolar fluid. The transformed unsteady boundary layer equations are solved numerically using the Keller-box method for the whole transient from the initial state to final steady-state flow. Numerical results are obtained for the velocity and microrotation distributions as well as the skin friction coefficient for various values of the material parameter K. It is found that there is a smooth transition from the small-time solution to the large-time solution.

Keywords: Boundary layer, micropolar fluid, stretching surface, unsteady flow.

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4051 Protein-Protein Interaction Detection Based on Substring Sensitivity Measure

Authors: Nazar Zaki, Safaai Deris, Hany Alashwal

Abstract:

Detecting protein-protein interactions is a central problem in computational biology and aberrant such interactions may have implicated in a number of neurological disorders. As a result, the prediction of protein-protein interactions has recently received considerable attention from biologist around the globe. Computational tools that are capable of effectively identifying protein-protein interactions are much needed. In this paper, we propose a method to detect protein-protein interaction based on substring similarity measure. Two protein sequences may interact by the mean of the similarities of the substrings they contain. When applied on the currently available protein-protein interaction data for the yeast Saccharomyces cerevisiae, the proposed method delivered reasonable improvement over the existing ones.

Keywords: Protein-Protein Interaction, support vector machine, feature extraction, pairwise alignment, Smith-Waterman score.

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4050 The Role of Ionic Strength and Mineral Size to Zeta Potential for the Adhesion of P. putida to Mineral Surfaces

Authors: M. Z. Fathiah, R. G. Edyvean

Abstract:

Electrostatic interaction energy (ΔEEDL) is a part of the Extended Derjaguin-Landau-Verwey-Overbeek (XDLVO) theory, which, together with van der Waals (ΔEVDW) and acid base (ΔEAB) interaction energies, has been extensively used to investigate the initial adhesion of bacteria to surfaces. Electrostatic or electrical double layer interaction energy is considerably affected by surface potential; however it cannot be determined experimentally and is usually replaced by zeta (ζ) potential via electrophoretic mobility. This paper focusses on the effect of ionic concentration as a function of pH and the effect of mineral grain size on ζ potential. It was found that both ionic strength and mineral grain size play a major role in determining the value of ζ potential for the adhesion of P. putida to hematite and quartz surfaces. Higher ζ potential values lead to higher electrostatic interaction energies and eventually to higher total XDLVO interaction energy resulting in bacterial repulsion.

Keywords: XDLVO, Electrostatic interaction energy, zeta potential, P. putida, mineral.

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4049 CFD Study of the Fluid Viscosity Variation and Effect on the Flow in a Stirred Tank

Authors: Achouri Ryma, Hatem Dhaouadi, Hatem Mhiri, Philippe Bournot

Abstract:

Stirred tanks are widely used in all industrial sectors. The need for further studies of the mixing operation and its different aspects comes from the diversity of agitation tools and implemented geometries in addition to the specific characteristics of each application. Viscous fluids are often encountered in industry and they represent the majority of treated cases, as in the polymer sector, food processing, pharmaceuticals and cosmetics. That's why in this paper, we will present a three-dimensional numerical study using the software Fluent, to study the effect of varying the fluid viscosity in a stirred tank with a Rushton turbine. This viscosity variation was performed by adding carboxymethylcellulose (CMC) to the fluid (water) in the vessel. In this work, we studied first the flow generated in the tank with a Rushton turbine. Second, we studied the effect of the fluid viscosity variation on the thermodynamic quantities defining the flow. For this, three viscosities (0.9% CMC, 1.1% CMC and 1.7% CMC) were considered.

Keywords: CFD, CMC, Mixing, Viscosity, Rushton turbine.

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4048 Modeling of Bio Scaffolds: Structural and Fluid Transport Characterization

Authors: Sahba Sadir, M. R. A. Kadir, A. Öchsner, M. N. Harun

Abstract:

Scaffolds play a key role in tissue engineering and can be produced in many different ways depending on the applications and the materials used. Most researchers used an experimental trialand- error approach into new biomaterials but computer simulation applied to tissue engineering can offer a more exhaustive approach to test and screen out biomaterials. This paper develops the model of scaffolds and Computational Fluid Dynamics that show the value of computer simulations in determining the influence of the geometrical scaffold parameter porosity, pore size and shape on the permeability of scaffolds, magnitude of velocity, drop pressure, shear stress distribution and level and the proper design of the geometry of the scaffold. This creates a need for more advanced studies that include aspects of dynamic conditions of a micro fluid passing through the scaffold were characterized for tissue engineering applications and differentiation of tissues within scaffolds.

Keywords: Scaffold engineering, Tissue engineering, Cellularstructure, Biomaterial, Computational fluid dynamics.

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4047 Experimental Study on Damping Ratios of in-situ Buildings

Authors: Zhiying Zhang, Chongdu Cho

Abstract:

Accurate evaluation of damping ratios involving soilstructure interaction (SSI) effects is the prerequisite for seismic design of in-situ buildings. This study proposes a combined approach to identify damping ratios of SSI systems based on ambient excitation technique. The proposed approach is illustrated with main test process, sampling principle and algorithm steps through an engineering example, as along with its feasibility and validity. The proposed approach is employed for damping ratio identification of 82 buildings in Xi-an, China. Based on the experimental data, the variation range and tendency of damping ratios of these SSI systems, along with the preliminary influence factor, are shown and discussed. In addition, a fitting curve indicates the relation between the damping ratio and fundamental natural period of SSI system.

Keywords: Damping ratio, seismic design, soil-structure interaction, system parameter identification.

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4046 Performance Evaluation of Minimum Quantity Lubrication on EN3 Mild Steel Turning

Authors: Swapnil Rajan Jadhav, Ajay Vasantrao Kashikar

Abstract:

Lubrication, cooling and chip removal are the desired functions of any cutting fluid. Conventional or flood lubrication requires high volume flow rate and cost associated with this is higher. In addition, flood lubrication possesses health risks to machine operator. To avoid these consequences, dry machining and minimum quantity are two alternatives. Dry machining cannot be a suited alternative as it can generate greater heat and poor surface finish. Here, turning work is carried out on a Lathe machine using EN3 Mild steel. Variable cutting speeds and depth of cuts are provided and corresponding temperatures and surface roughness values were recorded. Experimental results are analyzed by Minitab software. Regression analysis, main effect plot, and interaction plot conclusion are drawn by using ANOVA. There is a 95.83% reduction in the use of cutting fluid. MQL gives a 9.88% reduction in tool temperature, this will improve tool life. MQL produced a 17.64% improved surface finish. MQL appears to be an economical and environmentally compatible lubrication technique for sustainable manufacturing.

Keywords: ANOVA, MQL, regression analysis, surface roughness

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4045 Performance Evaluation of Minimum Quantity Lubrication on EN3 Mild Steel Turning

Authors: Swapnil Rajan Jadhav, Ajay Vasantrao Kashikar

Abstract:

Lubrication, cooling and chip removal are the desired functions of any cutting fluid. Conventional or flood lubrication requires high volume flow rate and cost associated with this is higher. In addition, flood lubrication possesses health risks to machine operator. To avoid these consequences, dry machining and minimum quantity are two alternatives. Dry machining cannot be a suited alternative as it can generate greater heat and poor surface finish. Here, turning work is carried out on a Lathe machine using EN3 Mild steel. Variable cutting speeds and depth of cuts are provided and corresponding temperatures and surface roughness values were recorded. Experimental results are analyzed by Minitab software. Regression analysis, main effect plot, and interaction plot conclusion are drawn by using ANOVA. There is a 95.83% reduction in the use of cutting fluid. MQL gives a 9.88% reduction in tool temperature, this will improve tool life. MQL produced a 17.64% improved surface finish. MQL appears to be an economical and environmentally compatible lubrication technique for sustainable manufacturing.

Keywords: ANOVA, MQL, regression analysis, surface roughness

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4044 Tailoring the Sharpness of Tungsten Nanotips via Laser Irradiation Enhanced Etching in KOH

Authors: D. D. Wang, J.C. Lam, Z. H. Mai

Abstract:

Controlled modification of appropriate sharpness for nanotips is of paramount importance to develop novel materials and functional devices at a nanometer resolution. Herein, we present a reliable and unique strategy of laser irradiation enhanced physicochemical etching to manufacture super sharp tungsten tips with reproducible shape and dimension as well as high yields (~80%). The corresponding morphology structure evolution of tungsten tips and laser-tip interaction mechanisms were systematically investigated and discussed using field emission scanning electron microscope (SEM) and physical optics statistics method with different fluences under 532 nm laser irradiation. This work paves the way for exploring more accessible metallic tips applications with tunable apex diameter and aspect ratio, and, furthermore, facilitates the potential sharpening enhancement technique for other materials used in a variety of nanoscale devices.

Keywords: Tungsten tip sharpening, Laser irradiation, Physicochemical etching, Light-matter interaction.

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4043 Soliton Interaction in Multi-Core Optical Fiber: Application to WDM System

Authors: S. Arun Prakash, V. Malathi, M. S. Mani Rajan

Abstract:

The analytical bright two soliton solution of the 3- coupled nonlinear Schrödinger equations with variable coefficients in birefringent optical fiber is obtained by Darboux transformation method. To the design of ultra-speed optical devices, Soliton interaction and control in birefringence fiber is investigated. Lax pair is constructed for N coupled NLS system through AKNS method. Using two-soliton solution, we demonstrate different interaction behaviors of solitons in birefringent fiber depending on the choice of control parameters. Our results shows that interactions of optical solitons have some specific applications such as construction of logic gates, optical computing, soliton switching, and soliton amplification in wavelength division multiplexing (WDM) system.

Keywords: Optical soliton, soliton interaction, soliton switching, WDM.

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4042 Touching Interaction: An NFC-RFID Combination

Authors: Eduardo Álvarez, Gerardo Quiroga, Jorge Orozco, Gabriel Chavira

Abstract:

AmI proposes a new way of thinking about computers, which follows the ideas of the Ubiquitous Computing vision of Mark Weiser. In these, there is what is known as a Disappearing Computer Initiative, with users immersed in intelligent environments. Hence, technologies need to be adapted so that they are capable of replacing the traditional inputs to the system by embedding these in every-day artifacts. In this work, we present an approach, which uses Radiofrequency Identification (RFID) and Near Field Communication (NFC) technologies. In the latter, a new form of interaction appears by contact. We compare both technologies by analyzing their requirements and advantages. In addition, we propose using a combination of RFID and NFC.

Keywords: Touching interaction, ambient intelligence, NFC, RFID.

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4041 CompPSA: A Component-Based Pairwise RNA Secondary Structure Alignment Algorithm

Authors: Ghada Badr, Arwa Alturki

Abstract:

The biological function of an RNA molecule depends on its structure. The objective of the alignment is finding the homology between two or more RNA secondary structures. Knowing the common functionalities between two RNA structures allows a better understanding and a discovery of other relationships between them. Besides, identifying non-coding RNAs -that is not translated into a protein- is a popular application in which RNA structural alignment is the first step A few methods for RNA structure-to-structure alignment have been developed. Most of these methods are partial structure-to-structure, sequence-to-structure, or structure-to-sequence alignment. Less attention is given in the literature to the use of efficient RNA structure representation and the structure-to-structure alignment methods are lacking. In this paper, we introduce an O(N2) Component-based Pairwise RNA Structure Alignment (CompPSA) algorithm, where structures are given as a component-based representation and where N is the maximum number of components in the two structures. The proposed algorithm compares the two RNA secondary structures based on their weighted component features rather than on their base-pair details. Extensive experiments are conducted illustrating the efficiency of the CompPSA algorithm when compared to other approaches and on different real and simulated datasets. The CompPSA algorithm shows an accurate similarity measure between components. The algorithm gives the flexibility for the user to align the two RNA structures based on their weighted features (position, full length, and/or stem length). Moreover, the algorithm proves scalability and efficiency in time and memory performance.

Keywords: Alignment, RNA secondary structure, pairwise, component-based, data mining.

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4040 Protein Secondary Structure Prediction

Authors: Manpreet Singh, Parvinder Singh Sandhu, Reet Kamal Kaur

Abstract:

Protein structure determination and prediction has been a focal research subject in the field of bioinformatics due to the importance of protein structure in understanding the biological and chemical activities of organisms. The experimental methods used by biotechnologists to determine the structures of proteins demand sophisticated equipment and time. A host of computational methods are developed to predict the location of secondary structure elements in proteins for complementing or creating insights into experimental results. However, prediction accuracies of these methods rarely exceed 70%.

Keywords: Protein, Secondary Structure, Prediction, DNA, RNA.

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4039 Analysis of DNA-Recognizing Enzyme Interaction using Deaminated Lesions

Authors: Seung Pil Pack

Abstract:

Deaminated lesions were produced via nitrosative oxidation of natural nucleobases; uracul (Ura, U) from cytosine (Cyt, C), hypoxanthine (Hyp, H) from adenine (Ade, A), and xanthine (Xan, X) and oxanine (Oxa, O) from guanine (Gua, G). Such damaged nucleobases may induce mutagenic problems, so that much attentions and efforts have been poured on the revealing of their mechanisms in vivo or in vitro. In this study, we employed these deaminated lesions as useful probes for analysis of DNA-binding/recognizing proteins or enzymes. Since the pyrimidine lesions such as Hyp, Oxa and Xan are employed as analogues of guanine, their comparative uses are informative for analyzing the role of Gua in DNA sequence in DNA-protein interaction. Several DNA oligomers containing such Hyp, Oxa or Xan substituted for Gua were designed to reveal the molecular interaction between DNA and protein. From this approach, we have got useful information to understand the molecular mechanisms of the DNA-recognizing enzymes, which have not ever been observed using conventional DNA oligomer composed of just natural nucleobases.

Keywords: Deaminated lesion, DNA-protein interaction, DNA-recognizing enzymes

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4038 Effect of Treadmill Exercise on Fluid Intelligence in Early Adults: Electroencephalogram Study

Authors: Ladda Leungratanamart, Seree Chadcham

Abstract:

Fluid intelligence declines along with age, but it can be developed. For this reason, increasing fluid intelligence in young adults can be possible. This study examined the effects of a two-month treadmill exercise program on fluid intelligence. The researcher designed a treadmill exercise program to promote cardiorespiratory fitness. Thirty-eight healthy voluntary students from the Boromarajonani College of Nursing, Chon Buri were assigned randomly to an exercise group (n=18) and a control group (n=20). The experiment consisted of three sessions: The baseline session consisted of measuring the VO2max, electroencephalogram and behavioral response during performed the Raven Progressive Matrices (RPM) test, a measure of fluid intelligence. For the exercise session, an experimental group exercises using treadmill training at 60 % to 80 % maximum heart rate for 30 mins, three times per week, whereas the control group did not exercise. For the following two sessions, each participant was measured the same as baseline testing. The data were analyzed using the t-test to examine whether there is significant difference between the means of the two groups. The results showed that the mean VO2 max in the experimental group were significantly more than the control group (p<.05), suggesting a two-month treadmill exercise program can improve fluid intelligence. When comparing the behavioral data, it was found that experimental group performed RPM test more accurately and faster than the control group. Neuroelectric data indicated a significant increase in percentages of alpha band ERD (%ERD) at P3 and Pz compared to the pre-exercise condition and the control group. These data suggest that a two-month treadmill exercise program can contribute to the development of cardiorespiratory fitness which influences an increase fluid intelligence. Exercise involved in cortical activation in difference brain areas.

Keywords: Treadmill exercise, fluid intelligence, raven progressive matrices test, %ERD of upper Alpha band.

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4037 Marangoni Instability in a Fluid Layer with Insoluble Surfactant

Authors: Ainon Syazana Ab. Hamid, Seripah Awang Kechil, Ahmad Sukri Abd. Aziz

Abstract:

The Marangoni convective instability in a horizontal fluid layer with the insoluble surfactant and nondeformable free surface is investigated. The surface tension at the free surface is linearly dependent on the temperature and concentration gradients. At the bottom surface, the temperature conditions of uniform temperature and uniform heat flux are considered. By linear stability theory, the exact analytical solutions for the steady Marangoni convection are derived and the marginal curves are plotted. The effects of surfactant or elasticity number, Lewis number and Biot number on the marginal Marangoni instability are assessed. The surfactant concentration gradients and the heat transfer mechanism at the free surface have stabilizing effects while the Lewis number destabilizes fluid system. The fluid system with uniform temperature condition at the bottom boundary is more stable than the fluid layer that is subjected to uniform heat flux at the bottom boundary.

Keywords: Analytical solutions, Marangoni Instability, Nondeformable free surface, Surfactant.

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4036 A Constitutive Model of Ligaments and Tendons Accounting for Fiber-Matrix Interaction

Authors: Ratchada Sopakayang, Gerhard A. Holzapfel

Abstract:

In this study, a new constitutive model is developed to describe the hyperelastic behavior of collagenous tissues with a parallel arrangement of collagen fibers such as ligaments and tendons. The model is formulated using a continuum approach incorporating the structural changes of the main tissue components: collagen fibers, proteoglycan-rich matrix and fiber-matrix interaction. The mechanical contribution of the interaction between the fibers and the matrix is simply expressed by a coupling term. The structural change of the collagen fibers is incorporated in the constitutive model to describe the activation of the fibers under tissue straining. Finally, the constitutive model can easily describe the stress-stretch nonlinearity which occurs when a ligament/tendon is axially stretched. This study shows that the interaction between the fibers and the matrix contributes to the mechanical tissue response. Therefore, the model may lead to a better understanding of the physiological mechanisms of ligaments and tendons under axial loading.

Keywords: Hyperelasticity, constitutive model, fiber-matrix interaction, ligament, tendon.

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