Search results for: Magnitude Classification

Authors: Mohammad Syuhaimi Ab-Rahman, Boonchuan Ng, Kasmiran Jumari

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This paper presented a MATLAB-based system named Smart Access Network Testing, Analyzing and Database (SANTAD), purposely for in-service transmission surveillance and self restoration against fiber fault in fiber-to-the-home (FTTH) access network. The developed program will be installed with optical line terminal (OLT) at central office (CO) to monitor the status and detect any fiber fault that occurs in FTTH downwardly from CO towards residential customer locations. SANTAD is interfaced with optical time domain reflectometer (OTDR) to accumulate every network testing result to be displayed on a single computer screen for further analysis. This program will identify and present the parameters of each optical fiber line such as the line's status either in working or nonworking condition, magnitude of decreasing at each point, failure location, and other details as shown in the OTDR's screen. The failure status will be delivered to field engineers for promptly actions, meanwhile the failure line will be diverted to protection line to ensure the traffic flow continuously. This approach has a bright prospect to improve the survivability and reliability as well as increase the efficiency and monitoring capabilities in FTTH.

Keywords: MATLAB, SANTAD, in-service transmission surveillance, self restoration, fiber fault, FTTH

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Authors: Reza Nadimi, Fariborz Jolai

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This article combines two techniques: data envelopment analysis (DEA) and Factor analysis (FA) to data reduction in decision making units (DMU). Data envelopment analysis (DEA), a popular linear programming technique is useful to rate comparatively operational efficiency of decision making units (DMU) based on their deterministic (not necessarily stochastic) input–output data and factor analysis techniques, have been proposed as data reduction and classification technique, which can be applied in data envelopment analysis (DEA) technique for reduction input – output data. Numerical results reveal that the new approach shows a good consistency in ranking with DEA.

Keywords: Effectiveness, Decision Making, Data EnvelopmentAnalysis, Factor Analysis

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Authors: Yerbol Sapargaliyev, Tatiana Kalganova

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Evolvable Hardware (EHW) has been regarded as adaptive system acquired by wide application market. Consumer market of any good requires diversity to satisfy consumers- preferences. Adaptation of EHW is a key technology that could provide individual approach to every particular user. This situation raises a question: how to set target for evolutionary algorithm? The existing techniques do not allow consumer to influence evolutionary process. Only designer at the moment is capable to influence the evolution. The proposed consumer-triggered evolution overcomes this problem by introducing new features to EHW that help adaptive system to obtain targets during consumer stage. Classification of EHW is given according to responsiveness, imitation of human behavior and target circuit response. Home intelligent water heating system is considered as an example.

Keywords: Actuators, consumer-triggered evolution, evolvable hardware, sensors.

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Authors: A. Hossein Sahoolizadeh, B. Zargham Heidari, C. Hamid Dehghani

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In this paper, a new face recognition method based on PCA (principal Component Analysis), LDA (Linear Discriminant Analysis) and neural networks is proposed. This method consists of four steps: i) Preprocessing, ii) Dimension reduction using PCA, iii) feature extraction using LDA and iv) classification using neural network. Combination of PCA and LDA is used for improving the capability of LDA when a few samples of images are available and neural classifier is used to reduce number misclassification caused by not-linearly separable classes. The proposed method was tested on Yale face database. Experimental results on this database demonstrated the effectiveness of the proposed method for face recognition with less misclassification in comparison with previous methods.

Keywords: Face recognition Principal component analysis, Linear discriminant analysis, Neural networks.

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Authors: Alisha Khanal, Gokhan Saygili

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It is commonly observed that aftershocks follow the mainshock. Aftershocks continue over a period of time with a decreasing frequency and typically there is not sufficient time for repair and retrofit between a mainshock–aftershock sequence. Usually, aftershocks are smaller in magnitude; however, aftershock ground motion characteristics such as the intensity and duration can be greater than the mainshock due to the changes in the earthquake mechanism and location with respect to the site. The seismic performance of slopes is typically evaluated based on the sliding displacement predicted to occur along a critical sliding surface. Various empirical models are available that predict sliding displacement as a function of seismic loading parameters, ground motion parameters, and site parameters but these models do not include the aftershocks. The seismic risks associated with the post-mainshock slopes ('damaged slopes') subjected to aftershocks is significant. This paper extends the empirical sliding displacement models for flexible slopes subjected to earthquake mainshock-aftershock sequences (a multi hazard approach). A dataset was developed using 144 pairs of as-recorded mainshock-aftershock sequences using the Pacific Earthquake Engineering Research Center (PEER) database. The results reveal that the combination of mainshock and aftershock increases the seismic demand on slopes relative to the mainshock alone; thus, seismic risks are underestimated if aftershocks are neglected.

Keywords: Seismic slope stability, sliding displacement, mainshock, aftershock, landslide, earthquake.

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Authors: R. Xu, X. Zhao, X. Li, C. Kwan, C.-I Chang

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An image texture analysis and target recognition approach of using an improved image texture feature coding method (TFCM) and Support Vector Machine (SVM) for target detection is presented. With our proposed target detection framework, targets of interest can be detected accurately. Cascade-Sliding-Window technique was also developed for automated target localization. Application to mammogram showed that over 88% of normal mammograms and 80% of abnormal mammograms can be correctly identified. The approach was also successfully applied to Synthetic Aperture Radar (SAR) and Ground Penetrating Radar (GPR) images for target detection.

Keywords: Image texture analysis, feature extraction, target detection, pattern classification.

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Authors: Antonis Sideris, Elias Chlis Kalogeropoulos, Konstantia Moirogiorgou

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The present study proposes a methodology for the efficient daily management of fleet vehicles and construction machinery. The application covers the area of remote monitoring of heavy-duty vehicles operation parameters, where specific sensor data are stored and examined in order to provide information about the vehicle’s health. The vehicle diagnostics allow the user to inspect whether maintenance tasks need to be performed before a fault occurs. A properly designed machine learning model is proposed for the detection of two different types of faults through classification. Cross validation is used and the accuracy of the trained model is checked with the confusion matrix.

Keywords: Fault detection, feature selection, machine learning, predictive maintenance.

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Authors: Saeed Sedighizadeh, Abbas Mansoori, Mohammad Reza Pirestani, Davoud Sedighizadeh

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The usual method of river flow diversion involves construction of tunnels and cofferdams. Given the fact that the cost of diversion works could be as high as 10-20% of the total dam construction cost, due attention should be paid to optimum design of the diversion works. The cost of diversion works depends, on factors, such as: the tunnel dimensions and the intended tunneling support measures during and after excavation; quality and characterizes of the rock through which the tunnel should be excavated; the dimensions of the upstream (and downstream) cofferdams; and the magnitude of river flood the system is designed to divert. In this paper by use of the cost of unit prices for tunnel excavation, tunnel lining, tunnel support (rock bolt + shotcrete) and cofferdam fill the cost function was determined. The function is then minimized by the aid of PSO Algorithm (particle swarm optimization). It is found that the optimum diameter and the total diversion cost are directly related to the river flood discharge (Q). It has also shown that in addition to optimum diameter design discharge (Q), river length, tunnel length, is mainly a function of the ratios (not the absolute values) of the unit prices and does not depend on the overall price levels in the respective country. The results of optimization use in some of the case study lead us to significant changes in the cost.

Keywords: Diversion Tunnel, Optimization, PSO Algorithm

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Authors: Nermin Ozgulbas, Ali Serhan Koyuncugil

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One of the biggest problems of SMEs is their tendencies to financial distress because of insufficient finance background. In this study, an Early Warning System (EWS) model based on data mining for financial risk detection is presented. CHAID algorithm has been used for development of the EWS. Developed EWS can be served like a tailor made financial advisor in decision making process of the firms with its automated nature to the ones who have inadequate financial background. Besides, an application of the model implemented which covered 7,853 SMEs based on Turkish Central Bank (TCB) 2007 data. By using EWS model, 31 risk profiles, 15 risk indicators, 2 early warning signals, and 4 financial road maps has been determined for financial risk mitigation.

Keywords: Early Warning Systems, Data Mining, Financial Risk, SMEs.

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Authors: Farzaneh Hadafi, Alireza Fallahi

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Natural Disasters have always occurred through earth life. As human life developed on earth, he faced with different disasters. Since disasters would destroy his living areas and ruin his life, he learned how to respond and overcome to these matters. Nowadays, in the era of industrialized world and informatics, the man kind seeks for stages and classification of pre and post disaster process in order to identify a framework in these circumstances. Because too many parameters complicate these frameworks and proceedings, it seems that this goal has not been properly established yet and the only resource is guidelines of UNDRO (1982) [1]. This paper will discuss about temporary housing as one of an approved stage in disaster management field and investigate the affects of disapproval or dismissal of this at two earthquakes which took place in Iran.

Keywords: Temporary Housing, Temporary Sheltering, DisasterManagement, Iran

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Authors: Daniel I. Morariu, Lucian N. Vintan, Volker Tresp

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Text categorization is the problem of classifying text documents into a set of predefined classes. After a preprocessing step, the documents are typically represented as large sparse vectors. When training classifiers on large collections of documents, both the time and memory restrictions can be quite prohibitive. This justifies the application of feature selection methods to reduce the dimensionality of the document-representation vector. In this paper, we present three feature selection methods: Information Gain, Support Vector Machine feature selection called (SVM_FS) and Genetic Algorithm with SVM (called GA_SVM). We show that the best results were obtained with GA_SVM method for a relatively small dimension of the feature vector.

Keywords: Feature Selection, Learning with Kernels, Support Vector Machine, Genetic Algorithm, and Classification.

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Authors: Daniel Morariu, Lucian N. Vintan, Volker Tresp

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Text categorization is the problem of classifying text documents into a set of predefined classes. After a preprocessing step, the documents are typically represented as large sparse vectors. When training classifiers on large collections of documents, both the time and memory restrictions can be quite prohibitive. This justifies the application of feature selection methods to reduce the dimensionality of the document-representation vector. In this paper, three feature selection methods are evaluated: Random Selection, Information Gain (IG) and Support Vector Machine feature selection (called SVM_FS). We show that the best results were obtained with SVM_FS method for a relatively small dimension of the feature vector. Also we present a novel method to better correlate SVM kernel-s parameters (Polynomial or Gaussian kernel).

Keywords: Feature Selection, Learning with Kernels, SupportVector Machine, and Classification.

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Authors: Praveen Boinee, Alessandro De Angelis, Gian Luca Foresti

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Leo Breimans Random Forests (RF) is a recent development in tree based classifiers and quickly proven to be one of the most important algorithms in the machine learning literature. It has shown robust and improved results of classifications on standard data sets. Ensemble learning algorithms such as AdaBoost and Bagging have been in active research and shown improvements in classification results for several benchmarking data sets with mainly decision trees as their base classifiers. In this paper we experiment to apply these Meta learning techniques to the random forests. We experiment the working of the ensembles of random forests on the standard data sets available in UCI data sets. We compare the original random forest algorithm with their ensemble counterparts and discuss the results.

Keywords: Random Forests [RF], ensembles, UCI.

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Authors: Z. N. Haji, S. O. Oyadiji, H. Samami, O. Farrell

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The prediction of the vibration response of rubber products by analytical or numerical method depends mainly on the predefined intrinsic material properties such as Young’s modulus, damping factor and Poisson’s ratio. Such intrinsic properties are determined experimentally by subjecting a bonded rubber sample to compression tests. The compression tests on such a sample yield an apparent Young’s modulus which is greater in magnitude than the intrinsic Young’s modulus of the rubber. As a result, many analytical equations have been developed to determine Young’s modulus from an apparent Young’s modulus of bonded rubber materials. In this work, the applicability of some of these analytical equations is assessed via experimental testing. The assessment is based on testing of vulcanized nitrile butadiene rubber (NBR70) samples using tensile test and compression test methods. The analytical equations are used to determine the intrinsic Young’s modulus from the apparent modulus that is derived from the compression test data of the bonded rubber samples. Then, these Young’s moduli are compared with the actual Young’s modulus that is derived from the tensile test data. The results show significant discrepancy between the Young’s modulus derived using the analytical equations and the actual Young’s modulus.

Keywords: Bonded rubber, quasi-static test, shape factor, apparent Young’s modulus.

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Authors: Boci J., Çabeli P., Shtylla T., Kumbe I.

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The development of the poultry industry in Albania is mainly based on the existence of intensive modern farms with huge capacities, which often are mixed with other forms. Colibacillosis is commonly displayed regardless of the type of breeding, delivering high mortality in poultry industry. The mechanisms with which pathogen enterobacters are able to cause the infection in poultry are not yet clear. The routine diagnose in the field, followed by isolation of E. coli and species of Salmonella genres in reference laboratories cannot lead in classification or full recognition of circulative strains in a territory, if it is not performed a differentiation among the present microorganisms in intensive farms and those in rural areas. In this study were isolated 1.496 strains of E. coli and 378 Salmonella spp. This study, presents distribution of poultry pathogenosity of E.coli and Salmonella spp., based on the usage of innovative diagnostic methods.

Keywords: poultry, E.coli, Salmonella spp., Enterobacter

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Authors: E. V. Veraszto, J. T. F. Camargo, D. Silva, N. A. Miranda, F. O. Simon, S. F. Amaral, L. V. Freitas

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The concept of technology as well as itself has evolved continuously over time, such that, nowadays, this concept is still marked by myths and realities. Even the concept of science is frequently misunderstood as technology. In this way, this paper presents different forms of interpretation of the concept of technology in the course of history, as well as the social and cultural aspects associated with it, through an analysis made by means of insights from sociological studies of science and technology and its multiple relations with society. Through the analysis of contents, the paper presents a classification of how technology is interpreted in the social sphere and search channel efforts to show how a broader understanding can contribute to better interpretations of how scientific and technological development influences the environment in which we operate. The text also presents a particular point of view for the interpretation of the concept from the analysis throughout the whole work.

Keywords: Technology, conceptions of technology, technological myths, definition of technology.

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Authors: Sherif G. Aly

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In this article, we introduce a mechanism by which the same concept of differentiated services used in network transmission can be applied to provide quality of service levels to pervasive systems applications. The classical DiffServ model, including marking and classification, assured forwarding, and expedited forwarding, are all utilized to create quality of service guarantees for various pervasive applications requiring different levels of quality of service. Through a collection of various sensors, personal devices, and data sources, the transmission of contextsensitive data can automatically occur within a pervasive system with a given quality of service level. Triggers, initiators, sources, and receivers are four entities labeled in our mechanism. An explanation of the role of each is provided, and how quality of service is guaranteed.

Keywords: Pervasive systems, quality of service, differentiated services, mobile devices.

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Authors: Armansyah, I. P. Almanar, M. Saiful Bahari Shaari, M. Shamil Jaffarullah, Nur’amirah Busu, M. Arif Fadzleen Zainal Abidin, M. Amlie A. Kasim

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During welding, the amount of heat present in weld zones determines the quality of weldment produced. Thus, the heat distribution characteristics and its magnitude in weld zones with respect to process variables such as tool pin-shoulder rotational and traveling speed during welding is analyzed using thermal finite element analyses method. For this purpose, transient thermal finite element analyses are performed to model the temperatures distribution and its quantities in weld-zones with respect to process variables such as rotational speed and traveling speed during welding. Commercially available software Altair HyperWork is used to model three-dimensional tool pin-shoulder vs. workpieces and to simulate the friction stir process. The results show that increasing tool rotational speed, at a constant traveling speed, will increase the amount of heat generated in weld-zones. In contrary, increasing traveling speed, at constant tool pin-shoulder rotational speeds, will reduce the amount of heat generated in weld zones.

Keywords: Frictions Stir Welding, Temperature Distribution, Finite Element Method, Altair Hyperwork.

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Authors: M. F. Zaiyadi, B. Baharudin

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Text document categorization involves large amount of data or features. The high dimensionality of features is a troublesome and can affect the performance of the classification. Therefore, feature selection is strongly considered as one of the crucial part in text document categorization. Selecting the best features to represent documents can reduce the dimensionality of feature space hence increase the performance. There were many approaches has been implemented by various researchers to overcome this problem. This paper proposed a novel hybrid approach for feature selection in text document categorization based on Ant Colony Optimization (ACO) and Information Gain (IG). We also presented state-of-the-art algorithms by several other researchers.

Keywords: Ant colony optimization, feature selection, information gain, text categorization, text representation.

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Authors: Carlos Huertas, Reyes Juarez-Ramirez

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Public health is one of the most critical issues today; therefore, there is great interest to improve technologies in the area of diseases detection. With machine learning and feature selection, it has been possible to aid the diagnosis of several diseases such as cancer. In this work, we present an extension to the Heat Map Based Feature Selection algorithm, this modification allows automatic threshold parameter selection that helps to improve the generalization performance of high dimensional data such as mass spectrometry. We have performed a comparison analysis using multiple cancer datasets and compare against the well known Recursive Feature Elimination algorithm and our original proposal, the results show improved classification performance that is very competitive against current techniques.

Keywords: Feature selection, mass spectrometry, biomarker discovery, cancer.

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Authors: Amr Mansour Mohsen, Hesham Ahmed Hassan, Amira M. Idrees

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Document Analysis is an important research field that aims to gather the information by analyzing the data in documents. As one of the important targets for many fields is to understand what people actually want, sentimental analysis field has been one of the vital fields that are tightly related to the document analysis. This research focuses on analyzing text documents to classify each document according to its opinion. The aim of this research is to detect the emotions from text documents based on enriching the lexicon with adapting their content based on semantic patterns extraction. The proposed approach has been presented, and different experiments are applied by different perspectives to reveal the positive impact of the proposed approach on the classification results.

Keywords: Document analysis, sentimental analysis, emotion detection, WEKA tool, NRC Lexicon.

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Authors: Bakari M. M. Mwinyiwiwa

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Renewable Energy based microgrids are being considered to provide electricity for the expanding energy demand in the grid distribution network and grid isolated areas. The technical challenges associated with the operation and controls are immense. Electricity generation by Renewable Energy Sources is of stochastic nature such that there is a demand for regulation of voltage output in order to satisfy the standard loads’ requirements. In a renewable energy based microgrid, the energy sources give stochastically variable magnitude AC or DC voltages. AC voltage regulation of micro and mini sources pose practical challenges as well as unbearable costs. It is therefore practically and economically viable to convert the voltage outputs from stochastic AC and DC voltage sources to constant DC voltage to satisfy various DC loads including inverters which ultimately feed AC loads. This paper presents results obtained from SEPIC converter based DC bus voltage regulator as a case study for renewable energy microgrid application. Real-Time Simulation results show that upon appropriate choice of controller parameters for control of the SEPIC converter, the output DC bus voltage can be kept constant regardless of wide range of voltage variations of the source. This feature is particularly important in the situation that multiple renewable sources are to be integrated to supply a microgrid under main grid integration or isolated modes of operation.

Keywords: DC Voltage Regulator, microgrid, multisource, Renewable Energy, SEPIC Converter.

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Authors: Nebi Gedik

Abstract:

Heart disease threatens the lives of a great number of people every year around the world. Heart issues lead to many of all deaths; therefore, early diagnosis and treatment are critical. The diagnosis of heart disease is complicated due to several factors affecting health such as high blood pressure, raised cholesterol, an irregular pulse rhythm, and more. Artificial intelligence has the potential to assist in the early detection and treatment of diseases. Improving heart failure prediction is one of the primary goals of research on heart disease risk assessment. This study aims to determine the features that provide the most successful classification prediction in detecting cardiovascular disease. The performances of each feature are compared using the K-Nearest Neighbor machine learning method. The feature that gives the most successful performance has been identified.

Keywords: Cardiovascular disease, feature extraction, supervised learning, k-NN.

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Authors: Seo Young Kim, Toshimitsu Hamasaki

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Microarrays have become the effective, broadly used tools in biological and medical research to address a wide range of problems, including classification of disease subtypes and tumors. Many statistical methods are available for analyzing and systematizing these complex data into meaningful information, and one of the main goals in analyzing gene expression data is the detection of samples or genes with similar expression patterns. In this paper, we express and compare the performance of several clustering methods based on data preprocessing including strategies of normalization or noise clearness. We also evaluate each of these clustering methods with validation measures for both simulated data and real gene expression data. Consequently, clustering methods which are common used in microarray data analysis are affected by normalization and degree of noise and clearness for datasets.

Keywords: Gene expression, clustering, data preprocessing.

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Authors: Khaled Harrar, Rachid Jennane

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The purpose of this study is the discrimination of 28 postmenopausal with osteoporotic femoral fractures from an agematched control group of 28 women using texture analysis based on fractals. Two pre-processing approaches are applied on radiographic images; these techniques are compared to highlight the choice of the pre-processing method. Furthermore, the values of the fractal dimension are compared to those of the fractal signature in terms of the classification of the two populations. In a second analysis, the BMD measure at proximal femur was compared to the fractal analysis, the latter, which is a non-invasive technique, allowed a better discrimination; the results confirm that the fractal analysis of texture on calcaneus radiographs is able to discriminate osteoporotic patients with femoral fracture from controls. This discrimination was efficient compared to that obtained by BMD alone. It was also present in comparing subgroups with overlapping values of BMD.

Keywords: Osteoporosis, fractal dimension, fractal signature, bone mineral density.

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Authors: G. M. Ayininuola, A. O. Sogunro

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Most failures of soil have been attributed to poor shear strength. Consequently, the present paper investigated the suitability of cattle bone ash as a possible additive to improve the shear strength of soils. Four soil samples were collected and stabilized with prepared bone ash in proportions of 3%, 5%, 7%, 10%, 15% and 20% by dry weight. Chemical analyses of the bone ash; followed by classification, compaction, and triaxial shear tests of the treated soil samples were conducted. Results obtained showed that bone ash contained high proportion of calcium oxide and phosphate. Addition of bone ash to soil samples led to increase in soil shear strengths within the range of 22.40% to 105.18% over the strengths of the respective control tests. Conversely, all samples attained maximum shear strengths at 7% bone ash stabilization. The use of bone ash as an additive will therefore improve the shear strength of soils; however, using bone ash quantities in excess of 7% may not yield ample results.

Keywords: Bone ash, Shear strength, Stabilization, Soil.

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Authors: Dewi Nasien, Siti S. Yuhaniz, Habibollah Haron

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In a handwriting recognition problem, characters can be represented using chain codes. The main problem in representing characters using chain code is optimizing the length of the chain code. This paper proposes to use randomized algorithm to minimize the length of Freeman Chain Codes (FCC) generated from isolated handwritten characters. Feedforward neural network is used in the classification stage to recognize the image characters. Our test results show that by applying the proposed model, we reached a relatively high accuracy for the problem of isolated handwritten when tested on NIST database.

Keywords: Handwriting Recognition, Freeman Chain Code andFeedforward Backpropagation Neural Networks.

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Authors: Revaz Chigladze

Abstract:

The purpose of the research is to investigate the surfaces of Jupiter's Galilean moons (satellites), namely to identify which moon has the most uniform surface among them, what is the difference between the front (in the direction of motion) and the back sides of each moon's surface, as well as the temporal variations of the moons. Since 1981, the E. Kharadze Georgian National Astrophysical Observatory has been conducting polarimetric (P) and photometric (M) observations of Jupiter's Galilean moons with telescopes of different diameters (40-cm and 125-cm), as well as polarimeter Automatic Scanning Electron Polarimeter (ASEP)-78, the latest generation photometer with polarimeter and modern light receiver Santana Barbara Instrument Group (SBIG). As it turns out from the analysis of the observed material, parameters P and M depend on: α, the phase angle of the moon (satellite); L, the orbital latitude of the moon (satellite); λ, the wavelength, and t, the period of observation, i.e., P = P (α, L, λ, t), and similarly: M = M (α, L, λ, t). Based on the analysis of the obtained results, we get: The magnitude of the degree of polarization of Jupiter's Galilean moons near the opposition significantly differs from zero. Europa appears to have the most uniform surface, and Callisto has the least. Time variations are most characteristic of Io, which confirms the presence of volcanic activity on its surface. Based on the observed materials, it can be seen that the intensity of light reflected from the front hemisphere of the first three moons: Io, Europa, and Ganymede, is less than the intensity of light reflected from the rear hemisphere, while the picture with Callisto is opposite. The paper provides an explanation of this fact.

Keywords: Galilean moons, polarization, degree of polarization, photometry, front and rear hemispheres.

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Authors: Kyoung-jae Kim, Hyunchul Ahn, Sangwon Jeong

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This study proposes a novel recommender system to provide the advertisements of context-aware services. Our proposed model is designed to apply a modified collaborative filtering (CF) algorithm with regard to the several dimensions for the personalization of mobile devices – location, time and the user-s needs type. In particular, we employ a classification rule to understand user-s needs type using a decision tree algorithm. In addition, we collect primary data from the mobile phone users and apply them to the proposed model to validate its effectiveness. Experimental results show that the proposed system makes more accurate and satisfactory advertisements than comparative systems.

Keywords: Location-based advertisement, Recommender system, Collaborative filtering, User needs type, Mobile user.

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Authors: Kai-Ti Hsu, Hui-Ling Huang, Chun-Wei Tung, Yi-Hsiung Chen, Shinn-Ying Ho

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Bioinformatics methods for predicting the T cell coreceptor usage from the array of membrane protein of HIV-1 are investigated. In this study, we aim to propose an effective prediction method for dealing with the three-class classification problem of CXCR4 (X4), CCR5 (R5) and CCR5/CXCR4 (R5X4). We made efforts in investigating the coreceptor prediction problem as follows: 1) proposing a feature set of informative physicochemical properties which is cooperated with SVM to achieve high prediction test accuracy of 81.48%, compared with the existing method with accuracy of 70.00%; 2) establishing a large up-to-date data set by increasing the size from 159 to 1225 sequences to verify the proposed prediction method where the mean test accuracy is 88.59%, and 3) analyzing the set of 14 informative physicochemical properties to further understand the characteristics of HIV-1coreceptors.

Keywords: Coreceptor, genetic algorithm, HIV-1, SVM, physicochemical properties, prediction.

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