Search results for: positive solutions
Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 2693

Search results for: positive solutions

2033 Evolution of the Hydrogen Atom: An Alternative to the Big Bang Theory

Authors: Ghassan H. Halasa

Abstract:

Elementary particles are created in pairs of equal and opposite momentums at a reference frame at the speed of light. The speed of light reference frame is viewed as a point in space as observed by observer at rest. This point in space is the bang location of the big bang theory. The bang in the big bang theory is not more than sustained flow of pairs of positive and negative elementary particles. Electrons and negative charged elementary particles are ejected from this point in space at velocities faster than light, while protons and positively charged particles obtain velocities lower than light. Subsonic masses are found to have real and positive charge, while supersonic masses are found to be negative and imaginary indicating that the two masses are of different entities. The electron-s super-sonic speed, as viewed by rest observer was calculated and found to be less than the speed of light and is little higher than the electron speed in Bohr-s orbit. The newly formed hydrogen gas temperature was found to be in agreement with temperatures found on newly formed stars. Universe expansion was found to be in agreement. Partial mass and charge elementary particles and particles with momentum only were explained in the context of this theoretical approach.

Keywords: Evolution of Matter, Multidimensional spaces, relativity, Big Bang Theory

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2032 Automatically Generated and Marked E-Learning Exercises for Logistics Cost Accounting

Authors: Markus Siepermann, Christoph Siepermann

Abstract:

This paper presents the concept and realisation of an e-learning tool that provides predefined or automatically generated exercises concerning logistics cost accounting. Students may practise where and whenever they like to via the Internet. Their solutions are marked automatically by the tool while considering consecutive faults and without any intervention of lecturers.

Keywords: Automatic marking, e-learning environment, onlinepracticing, randomly-generated exercises.

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2031 Pre-Malignant Breast Lesions, Methods of Treatment and Outcome

Authors: Ahmed Mostafa, Mohamed Mahmoud, Nesreen H. Hafez, Mohamed Fahim

Abstract:

This retrospective study includes 60 patients with pre-invasive breast cancer. Aim of the study: Evaluation of premalignant lesions of the breast (DCIS), different treatment methods and outcome. Patients and methods: 60 patients with DCIS were studied from the period between 2005 to 2012, for 38 patients the primary surgical method was wide local resection (WLE) (63.3%) and the other cases (22 patients, 36.7%) had mastectomy, fourteen cases from those who underwent local excision received radiotherapy, while no adjuvant radiotherapy was given for those who underwent mastectomy. In case of hormonal receptor positive DCIS lesions hormonal treatment (Tamoxifen) was given after local control. Results: No difference in overall survival between mastectomy & breast conserving therapy (wide local excision and adjuvant radiotherapy), however local recurrence rate is higher in case of breast conserving therapy, also no role of Axillary evacuation in case of DCIS. The use of hormonal therapy decreases the incidence of local recurrence by about 98%. Conclusion: The main management of DCIS is local treatment (wide local excision and radiotherapy) with hormonal treatment in case of hormone receptor positive lesions.

Keywords: Ductal carcinoma in situ, surgical treatment, radiotherapy, breast conserving therapy, hormonal treatment.

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2030 Ant System with Acoustic Communication

Authors: S. Bougrine, S. Ouchraa, B. Ahiod, A. A. El Imrani

Abstract:

Ant colony optimization is an ant algorithm framework that took inspiration from foraging behavior of ant colonies. Indeed, ACO algorithms use a chemical communication, represented by pheromone trails, to build good solutions. However, ants involve different communication channels to interact. Thus, this paper introduces the acoustic communication between ants while they are foraging. This process allows fine and local exploration of search space and permits optimal solution to be improved.

Keywords: Acoustic Communication, Ant Colony Optimization, Local Search, Traveling Salesman Problem.

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2029 Effective Class of Discreet Programing Problems

Authors: Kaziyev G. Z., Nabiyeva G. S., Kalizhanova A.U.

Abstract:

We consider herein a concise view of discreet programming models and methods. There has been conducted the models and methods analysis. On the basis of discreet programming models there has been elaborated and offered a new class of problems, i.e. block-symmetry models and methods of applied tasks statements and solutions.

Keywords: Discreet programming, block-symmetry, analysis methods, information systems development.

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2028 Stabilizing Effects of Deep Eutectic Solvents on Alcohol Dehydrogenase Mediated Systems

Authors: Fatima Zohra Ibn Majdoub Hassani, Ivan Lavandera, Joseph Kreit

Abstract:

This study explored the effects of different organic solvents, temperature, and the amount of glycerol on the alcohol dehydrogenase (ADH)-catalysed stereoselective reduction of different ketones. These conversions were then analyzed by gas chromatography. It was found that when the amount of deep eutectic solvents (DES) increases, it can improve the stereoselectivity of the enzyme although reducing its ability to convert the substrate into the corresponding alcohol. Moreover, glycerol was found to have a strong stabilizing effect on the ADH from Ralstonia sp. (E. coli/ RasADH). In the case of organic solvents, it was observed that the best conversions into the alcohols were achieved with DMSO and hexane. It was also observed that temperature decreased the ability of the enzyme to convert the substrates into the products and also affected the selectivity. In addition to that, the recycling of DES up to three times gave good conversions and enantiomeric excess results and glycerol showed a positive effect in the stability of various ADHs. Using RasADH, a good conversion and enantiomeric excess into the S-alcohol were obtained. It was found that an enhancement of the temperature disabled the stabilizing effect of glycerol and decreased the stereoselectivity of the enzyme. However, for other ADHs a temperature increase had an opposite positive effect, especially with ADH-T from Thermoanaerobium sp. One of the objectives of this study was to see the effect of cofactors such as NAD(P) on the biocatlysis activities of ADHs.

Keywords: Alcohol dehydrogenases, DES, gas chromatography, RasADH.

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2027 Approximation of Sturm-Liouville Problems by Exponentially Weighted Legendre-Gauss Tau Method

Authors: Mohamed K. El Daou

Abstract:

We construct an exponentially weighted Legendre- Gauss Tau method for solving differential equations with oscillatory solutions. The proposed method is applied to Sturm-Liouville problems. Numerical examples illustrating the efficiency and the high accuracy of our results are presented.

Keywords: Oscillatory functions, Sturm-Liouville problems, legendre polynomial, gauss points.

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2026 Conjugate Gradient Algorithm for the Symmetric Arrowhead Solution of Matrix Equation AXB=C

Authors: Minghui Wang, Luping Xu, Juntao Zhang

Abstract:

Based on the conjugate gradient (CG) algorithm, the constrained matrix equation AXB=C and the associate optimal approximation problem are considered for the symmetric arrowhead matrix solutions in the premise of consistency. The convergence results of the method are presented. At last, a numerical example is given to illustrate the efficiency of this method.

Keywords: Iterative method, symmetric arrowhead matrix, conjugate gradient algorithm.

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2025 On a Class of Inverse Problems for Degenerate Differential Equations

Authors: Fadi Awawdeh, H.M. Jaradat

Abstract:

In this paper, we establish existence and uniqueness of solutions for a class of inverse problems of degenerate differential equations. The main tool is the perturbation theory for linear operators.

Keywords: Inverse Problem, Degenerate Differential Equations, Perturbation Theory for Linear Operators

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2024 Approximate Solutions to Large Stein Matrix Equations

Authors: Khalide Jbilou

Abstract:

In the present paper, we propose numerical methods for solving the Stein equation AXC - X - D = 0 where the matrix A is large and sparse. Such problems appear in discrete-time control problems, filtering and image restoration. We consider the case where the matrix D is of full rank and the case where D is factored as a product of two matrices. The proposed methods are Krylov subspace methods based on the block Arnoldi algorithm. We give theoretical results and we report some numerical experiments.

Keywords: IEEEtran, journal, LATEX, paper, template.

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2023 Larval Occurrence and Climatic Factors Affecting DHF Incidence in Samui Islands, Thailand

Authors: S. Wongkoon, M. Jaroensutasinee, K. Jaroensutasinee, W. Preechaporn, S. Chumkiew

Abstract:

This study investigated the number of Aedes larvae, the key breeding sites of Aedes sp., and the relationship between climatic factors and the incidence of DHF in Samui Islands. We conducted our questionnaire and larval surveys from randomly selected 105 households in Samui Islands in July-September 2006. Pearson-s correlation coefficient was used to explore the primary association between the DHF incidence and all climatic factors. Multiple stepwise regression technique was then used to fit the statistical model. The results showed that the positive indoor containers were small jars, cement tanks, and plastic tanks. The positive outdoor containers were small jars, cement tanks, plastic tanks, used cans, tires, plastic bottles, discarded objects, pot saucers, plant pots, and areca husks. All Ae. albopictus larval indices (i.e., CI, HI, and BI) were higher than Ae. aegypti larval indices in this area. These larval indices were higher than WHO standard. This indicated a high risk of DHF transmission at Samui Islands. The multiple stepwise regression model was y = –288.80 + 11.024xmean temp. The mean temperature was positively associated with the DHF incidence in this area.

Keywords: Dengue vectors, Aedes aegypti, Aedes albopictus, Container Index, House Index, Breteau Index, Aedes indices, Climatic factors, Temperature.

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2022 Artificial Intelligent Approach for Machining Titanium Alloy in a Nonconventional Process

Authors: Md. Ashikur Rahman Khan, M. M. Rahman, K. Kadirgama

Abstract:

Artificial neural networks (ANN) are used in distinct researching fields and professions, and are prepared by cooperation of scientists in different fields such as computer engineering, electronic, structure, biology and so many different branches of science. Many models are built correlating the parameters and the outputs in electrical discharge machining (EDM) concern for different types of materials. Up till now model for Ti-5Al-2.5Sn alloy in the case of electrical discharge machining performance characteristics has not been developed. Therefore, in the present work, it is attempted to generate a model of material removal rate (MRR) for Ti-5Al-2.5Sn material by means of Artificial Neural Network. The experimentation is performed according to the design of experiment (DOE) of response surface methodology (RSM). To generate the DOE four parameters such as peak current, pulse on time, pulse off time and servo voltage and one output as MRR are considered. Ti-5Al-2.5Sn alloy is machined with positive polarity of copper electrode. Finally the developed model is tested with confirmation test. The confirmation test yields an error as within the agreeable limit. To investigate the effect of the parameters on performance sensitivity analysis is also carried out which reveals that the peak current having more effect on EDM performance.

Keywords: Ti-5Al-2.5Sn, material removal rate, copper tungsten, positive polarity, artificial neural network, multi-layer perceptron.

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2021 Laplace Adomian Decomposition Method Applied to a Two-Dimensional Viscous Flow with Shrinking Sheet

Authors: M. A. Koroma, S. Widatalla, A. F. Kamara, C. Zhang

Abstract:

Our aim in this piece of work is to demonstrate the power of the Laplace Adomian decomposition method (LADM) in approximating the solutions of nonlinear differential equations governing the two-dimensional viscous flow induced by a shrinking sheet.

Keywords: Adomian polynomials, Laplace Adomian decomposition method, Padé Approximant, Shrinking sheet.

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2020 Quantitative Genetics Researches on Milk Protein Systems of Romanian Grey Steppe Breed

Authors: V. Maciuc, Şt. Creangă, I. Gîlcă, V. Ujică

Abstract:

The paper makes part from a complex research project on Romanian Grey Steppe, a unique breed in terms of biological and cultural-historical importance, on the verge of extinction and which has been included in a preservation programme of genetic resources from Romania. The study of genetic polymorphism of protean fractions, especially kappa-casein, and the genotype relations of these lactoproteins with some quantitative and qualitative features of milk yield represents a current theme and a novelty for this breed. In the estimation of the genetic parameters we used R.E.M.L. (Restricted Maximum Likelihood) method. The main lactoprotein from milk, kappa - casein (K-cz), characterized in the specialized literature as a feature having a high degree of hereditary transmission, behaves as such in the nucleus under study, a value also confirmed by the heritability coefficient (h2 = 0.57 %). We must mention the medium values for milk and fat quantity (h2=0.26, 0.29 %) and the fat and protein percentage from milk having a high hereditary influence h2 = 0.71 - 0.63 %. Correlations between kappa-casein and the milk quantity are negative and strong. Between kappa-casein and other qualitative features of milk (fat content 0.58-0.67 % and protein content 0.77- 0.87%), there are positive and very strong correlations. At the same time, between kappa-casein and β casein (β-cz), β lactoglobulin (β- lg) respectively, correlations are positive having high values (0.37 – 0.45 %), indicating the same causes and determining factors for the two groups of features.

Keywords: breed, genetic preservation, lactoproteins, Romanian Grey Steppe

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2019 Closed-Form Solutions for Nanobeams Based On the Nonlocal Euler-Bernoulli Theory

Authors: Francesco Marotti de Sciarra, Raffaele Barretta

Abstract:

Starting from nonlocal continuum mechanics, a thermodynamically new nonlocal model of Euler-Bernoulli nanobeams is provided. The nonlocal variational formulation is consistently provided and the governing differential equation for transverse displacement is presented. Higher-order boundary conditions are then consistently derived. An example is contributed in order to show the effectiveness of the proposed model.

Keywords: Bernoulli-Euler beams, Nanobeams, nonlocal elasticity.

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2018 Microwave Assisted Fast Synthesis of Flower-like ZnO Based Guanidinium Template for Photodegradation of Azo Dye Congo Red

Authors: N. F .Hamedani, A.R. Mahjoub, A. A. khodadadi, Y. Mortazavi, F.Farzaneh

Abstract:

ZnO nanostructure were synthesized via microwave method using zinc acetate as starting material, guanidinium as structure directing agents, and water as solvent.. This work investigates the photodegradation of azo dyes using the ZnO Flowerlike in aqueous solutions. As synthesized ZnO samples were characterized using X-Ray powder diffraction (XRD), scanning electron microscopy (SEM), and FTIR spectroscopy.In this work photodecolorization of congored azo dye under UV irradiation by nano ZnO was studied.

Keywords: Photo catalyst, Nano crystals, Zinc Oxide

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2017 Rarefactive and Compressive Solitons in Warm Dusty Plasma with Electrons and Nonthermal Ions

Authors: Hamid Reza Pakzad

Abstract:

Dust acoustic solitary waves are studied in warm dusty plasma containing negatively charged dusts, nonthermal ions and Boltzmann distributed electrons. Sagdeev pseudopotential method is used in order to investigate solitary wave solutions in the plasmas. The existence of compressive and rarefractive solitons is studied.

Keywords: Nonthermal, Soliton, Dust, Sagdeev potential

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2016 Biological Effects of a Carbohydrate-Binding Protein from an Annelid, Perinereis nuntia Against Human and Phytopathogenic Microorganisms

Authors: Sarkar M. A. Kawsar, Sarkar M. A. Mamun, Md S. Rahman, Hidetaro Yasumitsu, Yasuhiro Ozeki

Abstract:

Lectins have a good scope in current clinical microbiology research. In the present study evaluated the antimicrobial activities of a D-galactose binding lectin (PnL) was purified from the annelid, Perinereis nuntia (polychaeta) by affinity chromatography. The molecular mass of the lectin was determined to be 32 kDa as a single polypeptide by SDS-PAGE under both reducing and non-reducing conditions. The hemagglutinating activity of the PnL showed against trypsinized and glutaraldehyde-fixed human erythrocytes was specifically inhibited by D-Gal, GalNAc, Galβ1-4Glc and Galα1-6Glc. PnL was evaluated for in vitro antibacterial screening studies against 11 gram-positive and gram-negative microorganisms. From the screening results, it was revealed that PnL exhibited significant antibacterial activity against gram-positive bacteria. Bacillus megaterium showed the highest growth inhibition by the lectin (250 μg/disc). However, PnL did not inhibit the growth of gram-negative bacteria such as Vibrio cholerae and Pseudomonas sp. PnL was also examined for in vitro antifungal activity against six fungal phytopathogens. PnL (100 μg/mL) inhibited the mycelial growth of Alternaria alternata (24.4%). These results indicate that future findings of lectin applications obtained from annelids may be of importance to life sciences.

Keywords: Perinereis nuntia, Lectin, Inhibition zone, Mycelial growth.

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2015 On the Move to Semantic Web Services

Authors: Jorge Cardoso

Abstract:

Semantic Web services will enable the semiautomatic and automatic annotation, advertisement, discovery, selection, composition, and execution of inter-organization business logic, making the Internet become a common global platform where organizations and individuals communicate with each other to carry out various commercial activities and to provide value-added services. There is a growing consensus that Web services alone will not be sufficient to develop valuable solutions due the degree of heterogeneity, autonomy, and distribution of the Web. This paper deals with two of the hottest R&D and technology areas currently associated with the Web – Web services and the Semantic Web. It presents the synergies that can be created between Web Services and Semantic Web technologies to provide a new generation of eservices.

Keywords: Semantic Web, Web service, Web process, WWW.

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2014 Quartic Nonpolynomial Spline Solutions for Third Order Two-Point Boundary Value Problem

Authors: Talaat S. El-Danaf

Abstract:

In this paper, we develop quartic nonpolynomial spline method for the numerical solution of third order two point boundary value problems. It is shown that the new method gives approximations, which are better than those produced by other spline methods. Convergence analysis of the method is discussed through standard procedures. Two numerical examples are given to illustrate the applicability and efficiency of the novel method.

Keywords: Quartic nonpolynomial spline, Two-point boundary value problem.

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2013 Iterative Solutions to Some Linear Matrix Equations

Authors: Jiashang Jiang, Hao Liu, Yongxin Yuan

Abstract:

In this paper the gradient based iterative algorithms are presented to solve the following four types linear matrix equations: (a) AXB = F; (b) AXB = F, CXD = G; (c) AXB = F s. t. X = XT ; (d) AXB+CYD = F, where X and Y are unknown matrices, A,B,C,D, F,G are the given constant matrices. It is proved that if the equation considered has a solution, then the unique minimum norm solution can be obtained by choosing a special kind of initial matrices. The numerical results show that the proposed method is reliable and attractive.

Keywords: Matrix equation, iterative algorithm, parameter estimation, minimum norm solution.

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2012 Geochemical and Mineralogical Characteristics of Soils in Areas Affected by the Fires on August 2021 at the Ilia Prefecture, Greece

Authors: D. Panagiotaras, P. Avramidis, D. Papoulis, D. Koulougliotis, D. C. Christodoulopoulos, D. Lekka, D. Nifora, D. Drouvari, A. Skalioti

Abstract:

This study delineates the geochemical, mineralogical and sedimentological characteristics of soils collected from woodland and forest areas affected by the fires of August 2021 at the Pelopio region, Ancient Olympia Municipality, Ilia prefecture, Greece. The mineralogical composition of the samples consists of quartz, calcite, feldspars (albite, oligoclase, anorthite) and clay minerals mostly smectite, kaolinite, and illite. Quartz ranges from 38% to 57% with an average of 48%, calcite ranges from 2% to 25% with an average of 14%, feldspars ranges from 7% to 26% with an average of 17% and clays ranges from 4% to 43% with an average of 21%. Sedimentological analyses classify most of the samples as loam to silt loam. Sand percentage ranges from 14.76% to 71.11% with an average of 35.01%, silt ranges from 21.68% to 62.34% with an average of 44.96%. Geochemical analyses of the soil samples applied for total organic carbon (TOC), total nitrogen (TN), total phosphorous (TP), Cu, Zn, Mn and Fe. TOC ranges from 0.28-0.83%, TN from 0.09-0.48 mg/g, TP from 0.02-0.26 mg/g, Cu from 10-21 ppm, Zn from 15-34 ppm, Mn from 612-1204 ppm, Fe from 9528-27500 ppm. The pH ranges from 7.5 to 9.07 with an average of 8.74, while the values of electrical conductivity (EC) range from 0.05-0.12 mS/cm, with an average of 0.07 mS/cm. Statistical analysis of the data shows a positive correlation between clays and Zn, Mn, Fe. TOC and TN show a strong positive correlation, while Fe shows a strong negative correlation with calcite. 

Keywords: Soils, geochemistry, mineralogy, sedimentology, woodland, forest.

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2011 Two Different Solutions for Gigabit Ethernet Transmission over POF

Authors: Stefano Straullu, Silvio Abrate, Antonino Nespola, Paolo Savio, Roberto Gaudino

Abstract:

Two completely different approaches for a Gigabit Ethernet compliant stream transmission over 50m of 1mm PMMA SI-POF have been experimentally demonstrated and are compared in this paper. The first solution is based on a commercial RC-LED transmission and a careful optimization of the physical layer architecture, realized during the POF-PLUS EU Project. The second solution exploits the performance of an edge-emitting laser at the transmitter side in order to avoid any sort of electrical equalization at the receiver side.

Keywords: Gigabit Ethernet, Home Networking, Step-Index Polymer Optical Fiber (SI-POF)

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2010 On Deterministic Chaos: Disclosing the Missing Mathematics from the Lorenz-Haken Equations

Authors: Belkacem Meziane

Abstract:

The original 3D Lorenz-Haken equations -which describe laser dynamics- are converted into 2-second-order differential equations out of which the so far missing mathematics is extracted. Leaning on high-order trigonometry, important outcomes are pulled out: A fundamental result attributes chaos to forbidden periodic solutions, inside some precisely delimited region of the control parameter space that governs self-pulsing.

Keywords: chaos, Lorenz-Haken equations, laser dynamics, nonlinearities

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2009 Localized Non-Stability of the Semi-Infinite Elastic Orthotropic Plate

Authors: Reza Sharifian, Vagharshak Belubekyan

Abstract:

This paper is concerned with an investigation into the localized non-stability of a thin elastic orthotropic semi-infinite plate. In this study, a semi-infinite plate, simply supported on two edges and different boundary conditions, clamped, hinged, sliding contact and free on the other edge, are considered. The mathematical model is used and a general solution is presented the conditions under which localized solutions exist are investigated.

Keywords: Localized, Non-stability, Orthotropic, Semi-infinite

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2008 Recursive Similarity Hashing of Fractal Geometry

Authors: Timothee G. Leleu

Abstract:

A new technique of topological multi-scale analysis is introduced. By performing a clustering recursively to build a hierarchy, and analyzing the co-scale and intra-scale similarities, an Iterated Function System can be extracted from any data set. The study of fractals shows that this method is efficient to extract self-similarities, and can find elegant solutions the inverse problem of building fractals. The theoretical aspects and practical implementations are discussed, together with examples of analyses of simple fractals.

Keywords: hierarchical clustering, multi-scale analysis, Similarity hashing.

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2007 Bifurcation Analysis in a Two-neuron System with Different Time Delays

Authors: Changjin Xu

Abstract:

In this paper, we consider a two-neuron system with time-delayed connections between neurons. By analyzing the associated characteristic transcendental equation, its linear stability is investigated and Hopf bifurcation is demonstrated. Some explicit formulae for determining the stability and the direction of the Hopf bifurcation periodic solutions bifurcating from Hopf bifurcations are obtained by using the normal form theory and center manifold theory. Some numerical simulation results are given to support the theoretical predictions. Finally, main conclusions are given.

Keywords: Two-neuron system, delay, stability, Hopf bifurcation.

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2006 Adomian Method for Second-order Fuzzy Differential Equation

Authors: Lei Wang, Sizong Guo

Abstract:

In this paper, we study the numerical method for solving second-order fuzzy differential equations using Adomian method under strongly generalized differentiability. And, we present an example with initial condition having four different solutions to illustrate the efficiency of the proposed method under strongly generalized differentiability.

Keywords: Fuzzy-valued function, fuzzy initial value problem, strongly generalized differentiability, adomian decomposition method.

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2005 Trend Analysis for Extreme Rainfall Events in New South Wales, Australia

Authors: Evan Hajani, Ataur Rahman, Khaled Haddad

Abstract:

Climate change will affect the hydrological cycle in many different ways such as increase in evaporation and rainfalls. There have been growing interests among researchers to identify the nature of trends in historical rainfall data in many different parts of the world. This paper examines the trends in annual maximum rainfall data from 30 stations in New South Wales, Australia by using two non-parametric tests, Mann-Kendall (MK) and Spearman’s Rho (SR). Rainfall data were analyzed for fifteen different durations ranging from 6 min to 3 days. It is found that the sub-hourly durations (6, 12, 18, 24, 30 and 48 minutes) show statistically significant positive (upward) trends whereas longer duration (subdaily and daily) events generally show a statistically significant negative (downward) trend. It is also found that the MK test and SR test provide notably different results for some rainfall event durations considered in this study. Since shorter duration sub-hourly rainfall events show positive trends at many stations, the design rainfall data based on stationary frequency analysis for these durations need to be adjusted to account for the impact of climate change. These shorter durations are more relevant to many urban development projects based on smaller catchments having a much shorter response time.

Keywords: Climate change, Mann-Kendall test, Spearman’s Rho test, trends, design rainfall.

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2004 Selecting Negative Examples for Protein-Protein Interaction

Authors: Mohammad Shoyaib, M. Abdullah-Al-Wadud, Oksam Chae

Abstract:

Proteomics is one of the largest areas of research for bioinformatics and medical science. An ambitious goal of proteomics is to elucidate the structure, interactions and functions of all proteins within cells and organisms. Predicting Protein-Protein Interaction (PPI) is one of the crucial and decisive problems in current research. Genomic data offer a great opportunity and at the same time a lot of challenges for the identification of these interactions. Many methods have already been proposed in this regard. In case of in-silico identification, most of the methods require both positive and negative examples of protein interaction and the perfection of these examples are very much crucial for the final prediction accuracy. Positive examples are relatively easy to obtain from well known databases. But the generation of negative examples is not a trivial task. Current PPI identification methods generate negative examples based on some assumptions, which are likely to affect their prediction accuracy. Hence, if more reliable negative examples are used, the PPI prediction methods may achieve even more accuracy. Focusing on this issue, a graph based negative example generation method is proposed, which is simple and more accurate than the existing approaches. An interaction graph of the protein sequences is created. The basic assumption is that the longer the shortest path between two protein-sequences in the interaction graph, the less is the possibility of their interaction. A well established PPI detection algorithm is employed with our negative examples and in most cases it increases the accuracy more than 10% in comparison with the negative pair selection method in that paper.

Keywords: Interaction graph, Negative training data, Protein-Protein interaction, Support vector machine.

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