Search results for: Sub-structure and Time Domain.

Authors: Muhammad Sollehhuddin A. Jalil, Mohd Ibrahim Shapiai, Rubiyah Yusof

Abstract:

Nowadays, ontology is common in many areas like artificial intelligence, bioinformatics, e-commerce, education and many more. Ontology is one of the focus areas in the field of Information Retrieval. The purpose of an ontology is to describe a conceptual representation of concepts and their relationships within a particular domain. In other words, ontology provides a common vocabulary for anyone who needs to share information in the domain. There are several ontology domains in various fields including engineering and non-engineering knowledge. However, there are only a few available ontology for engineering knowledge. Fuzzy logic as engineering knowledge is still not available as ontology domain. In general, fuzzy logic requires step-by-step guidelines and instructions of lab experiments. In this study, we presented domain ontology for Fuzzy Logic Control (FLC) knowledge. We give Table of Content (ToC) with middle strategy based on the Uschold and King method to develop FLC ontology. The proposed framework is developed using Protégé as the ontology tool. The Protégé’s ontology reasoner, known as the Pellet reasoner is then used to validate the presented framework. The presented framework offers better performance based on consistency and classification parameter index. In general, this ontology can provide a platform to anyone who needs to understand FLC knowledge.

Keywords: Engineering knowledge, fuzzy logic control ontology, ontology development, table of contents.

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Authors: B. S. Raghavendra, D. Narayana Dutt

Abstract:

In this paper, we have developed a method to compute fractal dimension (FD) of discrete time signals, in the time domain, by modifying the box-counting method. The size of the box is dependent on the sampling frequency of the signal. The number of boxes required to completely cover the signal are obtained at multiple time resolutions. The time resolutions are made coarse by decimating the signal. The loglog plot of total number of boxes required to cover the curve versus size of the box used appears to be a straight line, whose slope is taken as an estimate of FD of the signal. The results are provided to demonstrate the performance of the proposed method using parametric fractal signals. The estimation accuracy of the method is compared with that of Katz, Sevcik, and Higuchi methods. In addition, some properties of the FD are discussed.

Keywords: Box-counting, Fractal dimension, Higuchi method, Katz method, Parametric fractal signals, Sevcik method.

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Authors: Bang Young Kim, Sang Hoon Park, Chul Gyu Song

Abstract:

A conventional optical coherence tomography (OCT) system has limited imaging depth, which is 1-2 mm, and suffers unwanted noise such as speckle noise. The motorized-stage-based OCT system, using a common-path Fourier-domain optical coherence tomography (CP-FD-OCT) configuration, provides enhanced imaging depth and less noise so that we can overcome these limitations. Using this OCT systems, OCT images were obtained from an onion, and their subsurface structure was observed. As a result, the images obtained using the developed motorized-stage-based system showed enhanced imaging depth than the conventional system, since it is real-time accurate depth tracking. Consequently, the developed CP-FD-OCT systems and algorithms have good potential for the further development of endoscopic OCT for microsurgery.

Keywords: Common-path OCT, FD-OCT, OCT, Tracking algorithm.

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Authors: Ashok Ganguly, Pranjali Arondekar

Abstract:

In the present paper, we use generalized B-Spline curve in trigonometric form on circular domain, to capture the transcendental nature of circle involute curve and uncertainty characteristic of design. The required involute curve get generated within the given tolerance limit and is useful in gear design.

Keywords: Bézier, Circle Involute, NAUT B-Spline, Spur Gear.

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Authors: P. Warnicke

Abstract:

Simulations of magnetic microstructure in elliptical Permalloy elements used for controlled motion of magnetic particles are discussed. The saturating field of the elliptical elements was studied with respect to lateral dimensions for one-vortex, cross-tie, diamond and double-diamond states as initial zero-field domain configurations. With aspect ratio of 1:3 the short axis was varied from 125 nm to 1000 nm, whereas the thickness was kept constant at 50 nm.

Keywords: Domain structure, magnetization, micromagnetics, Permalloy.

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Authors: Guomin Luo, Daming Zhang, Yong Kwee Koh, Kim Teck Ng, Helmi Kurniawan, Weng Hoe Leong

Abstract:

Partial discharge (PD) detection is an important method to evaluate the insulation condition of metal-clad apparatus. Non-intrusive sensors which are easy to install and have no interruptions on operation are preferred in onsite PD detection. However, it often lacks of accuracy due to the interferences in PD signals. In this paper a novel PD extraction method that uses frequency analysis and entropy based time-frequency (TF) analysis is introduced. The repetitive pulses from convertor are first removed via frequency analysis. Then, the relative entropy and relative peak-frequency of each pulse (i.e. time-indexed vector TF spectrum) are calculated and all pulses with similar parameters are grouped. According to the characteristics of non-intrusive sensor and the frequency distribution of PDs, the pulses of PD and interferences are separated. Finally the PD signal and interferences are recovered via inverse TF transform. The de-noised result of noisy PD data demonstrates that the combination of frequency and time-frequency techniques can discriminate PDs from interferences with various frequency distributions.

Keywords: Entropy, Fourier analysis, non-intrusive measurement, time-frequency analysis, partial discharge

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Authors: Gülçin Tekin, Fethi Kadıoğlu

Abstract:

In this study, the dynamic analysis of viscoelastic plates with variable thickness is examined. The solutions of dynamic response of viscoelastic thin plates with variable thickness have been obtained by using the functional analysis method in the conjunction with the Gâteaux differential. The four-node serendipity element with four degrees of freedom such as deflection, bending, and twisting moments at each node is used. Additionally, boundary condition terms are included in the functional by using a systematic way. In viscoelastic modeling, Three-parameter Kelvin solid model is employed. The solutions obtained in the Laplace-Carson domain are transformed to the real time domain by using MDOP, Dubner & Abate, and Durbin inverse transform techniques. To test the performance of the proposed mixed finite element formulation, numerical examples are treated.

Keywords: Dynamic analysis, inverse Laplace transform techniques, mixed finite element formulation, viscoelastic plate with variable thickness.

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Authors: Bahi brahim, El hassane Ibn Elhaj, Driss Aboutajdine

Abstract:

In this paper we propose a Multiple Description Image Coding(MDIC) scheme to generate two compressed and balanced rates descriptions in the wavelet domain (Daubechies biorthogonal (9, 7) wavelet) using pairwise correlating transform optimal and application method for Generalized Multiple Description Coding (GMDC) to image coding in the wavelet domain. The GMDC produces statistically correlated streams such that lost streams can be estimated from the received data. Our performance test shown that the proposed method gives more improvement and good quality of the reconstructed image when the wavelet coefficients are normalized by Gaussian Scale Mixture (GSM) model then the Gaussian one ,.

Keywords: Multiple description coding (MDC), gaussian scale mixture (GSM) model, joint source-channel coding, pairwise correlating transform, GMDCT.

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Authors: Hazem M. El-Bakry

Abstract:

Neural processors have shown good results for detecting a certain character in a given input matrix. In this paper, a new idead to speed up the operation of neural processors for character detection is presented. Such processors are designed based on cross correlation in the frequency domain between the input matrix and the weights of neural networks. This approach is developed to reduce the computation steps required by these faster neural networks for the searching process. The principle of divide and conquer strategy is applied through image decomposition. Each image is divided into small in size sub-images and then each one is tested separately by using a single faster neural processor. Furthermore, faster character detection is obtained by using parallel processing techniques to test the resulting sub-images at the same time using the same number of faster neural networks. In contrast to using only faster neural processors, the speed up ratio is increased with the size of the input image when using faster neural processors and image decomposition. Moreover, the problem of local subimage normalization in the frequency domain is solved. The effect of image normalization on the speed up ratio of character detection is discussed. Simulation results show that local subimage normalization through weight normalization is faster than subimage normalization in the spatial domain. The overall speed up ratio of the detection process is increased as the normalization of weights is done off line.

Keywords: Fast Character Detection, Neural Processors, Cross Correlation, Image Normalization, Parallel Processing.

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Authors: Edlira Kalemi, Sule Yildirim-Yayilgan

Abstract:

Online Social Networks (OSNs) are nowadays being used widely and intensively for crime investigation and prevention activities. As they provide a lot of information they are used by the law enforcement and intelligence. An extensive review on existing solutions and models for collecting intelligence from this source of information and making use of it for solving crimes has been presented in this article. The main focus is on smart solutions and models where ontologies have been used as the main approach for representing criminal domain knowledge. A framework for a prototype ontology named SC-Ont will be described. This defines terms of the criminal domain ontology and the relations between them. The terms and the relations are extracted during both this review and the discussions carried out with domain experts. The development of SC-Ont is still ongoing work, where in this paper, we report mainly on the motivation for using smart ontology models and the possible benefits of using them for solving crimes.

Keywords: Criminal digital evidence, social media, ontologies, reasoning.

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Authors: Yun Bai

Abstract:

Representing objects in a dynamic domain is essential in commonsense reasoning under some circumstances. Classical logics and their nonmonotonic consequences, however, are usually not able to deal with reasoning with dynamic domains due to the fact that every constant in the logical language denotes some existing object in the static domain. In this paper, we explore a logical formalization which allows us to represent nonexisting objects in commonsense reasoning. A formal system named N-theory is proposed for this purpose and its possible application in computer security is briefly discussed.

Keywords: knowledge representation and reasoning, commonsensereasoning, computer security

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Authors: M.A. Ahmad

Abstract:

This paper presents the use of anti-sway angle control approaches for a two-dimensional gantry crane with disturbances effect in the dynamic system. Delayed feedback signal (DFS) and proportional-derivative (PD)-type fuzzy logic controller are the techniques used in this investigation to actively control the sway angle of the rope of gantry crane system. A nonlinear overhead gantry crane system is considered and the dynamic model of the system is derived using the Euler-Lagrange formulation. A complete analysis of simulation results for each technique is presented in time domain and frequency domain respectively. Performances of both controllers are examined in terms of sway angle suppression and disturbances cancellation. Finally, a comparative assessment of the impact of each controller on the system performance is presented and discussed.

Keywords: Gantry crane, anti-sway control, DFS controller, PD-type Fuzzy Logic Controller.

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Authors: Wararat Rungworawut, Twittie Senivongse

Abstract:

Business process model describes process flow of a business and can be seen as the requirement for developing a software application. This paper discusses a BPM2CD guideline which complements the Model Driven Architecture concept by suggesting how to create a platform-independent software model in the form of a UML class diagram from a business process model. An important step is the identification of UML classes from the business process model. A technique for object-oriented analysis called domain analysis is borrowed and key concepts in the business process model will be discovered and proposed as candidate classes for the class diagram. The paper enhances this step by using ontology search to help identify important classes for the business domain. As ontology is a source of knowledge for a particular domain which itself can link to ontologies of related domains, the search can give a refined set of candidate classes for the resulting class diagram.

Keywords: Business Process Model, Model DrivenArchitecture, Ontology, UML Class Diagram.

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Authors: Omer Mahmood, Selvakennedy Selvadurai

Abstract:

“Web of Trust" is one of the recognized goals for Web 2.0. It aims to make it possible for the people to take responsibility for what they publish on the web, including organizations, businesses and individual users. These objectives, among others, drive most of the technologies and protocols recently standardized by the governing bodies. One of the great advantages of Web infrastructure is decentralization of publication. The primary motivation behind Web 2.0 is to assist the people to add contents for Collective Intelligence (CI) while providing mechanisms to link content with people for evaluations and accountability of information. Such structure of contents will interconnect users and contents so that users can use contents to find participants and vice versa. This paper proposes conceptual information storage and linking model, based on decentralized information structure, that links contents and people together. The model uses FOAF, Atom, RDF and RDFS and can be used as a blueprint to develop Web 2.0 applications for any e-domain. However, primary target for this paper is online trust evaluation domain. The proposed model targets to assist the individuals to establish “Web of Trust" in online trust domain.

Keywords: Web of Trust, Semantic Web, Electronic SocialNetworks, Information Management

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Authors: Akif Kutlu, Merve Ermis, Nihal Eratlı, Mehmet H. Omurtag

Abstract:

The objective of this study is to investigate the forced vibration analysis of a planar curved beam lying on elastic foundation by using the mixed finite element method. The finite element formulation is based on the Timoshenko beam theory. In order to solve the problems in frequency domain, the element matrices of two nodded curvilinear elements are transformed into Laplace space. The results are transformed back to the time domain by the well-known numerical Modified Durbin’s transformation algorithm. First, the presented finite element formulation is verified through the forced vibration analysis of a planar curved Timoshenko beam resting on Winkler foundation and the finite element results are compared with the results available in the literature. Then, the forced vibration analysis of a planar curved beam resting on Winkler-Pasternak foundation is conducted.

Keywords: Curved beam, dynamic analysis, elastic foundation, finite element method.

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Authors: Duong Vannak, Mohd Shahir Liew, Guo Zheng Yew

Abstract:

Data of wave height and wind speed were collected from three existing oil fields in South China Sea – offshore Peninsular Malaysia, Sarawak and Sabah regions. Extreme values and other significant data were employed for analysis. The data were recorded from 1999 until 2008. The results show that offshore structures are susceptible to unacceptable motions initiated by wind and waves with worst structural impacts caused by extreme wave heights. To protect offshore structures from damage, there is a need to quantify descriptive statistics and determine spectra envelope of wind speed and wave height, and to ascertain the frequency content of each spectrum for offshore structures in the South China Sea shallow waters using measured time series. The results indicate that the process is nonstationary; it is converted to stationary process by first differencing the time series. For descriptive statistical analysis, both wind speed and wave height have significant influence on the offshore structure during the northeast monsoon with high mean wind speed of 13.5195 knots (
= 6.3566 knots) and the high mean wave height of 2.3597 m (
= 0.8690 m). Through observation of the spectra, there is no clear dominant peak and the peaks fluctuate randomly. Each wind speed spectrum and wave height spectrum has its individual identifiable pattern. The wind speed spectrum tends to grow gradually at the lower frequency range and increasing till it doubles at the higher frequency range with the mean peak frequency range of 0.4104 Hz to 0.4721 Hz, while the wave height tends to grow drastically at the low frequency range, which then fluctuates and decreases slightly at the high frequency range with the mean peak frequency range of 0.2911 Hz to 0.3425 Hz.

Keywords: Metocean, Offshore Engineering, Time Series, Descriptive Statistics, Autospectral Density Function, Wind, Wave.

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Authors: Zhang Wenbo, Tian Ye, Sun Peigen, Xu Haifeng

Abstract:

According to the mobility of the satellite network nodes and the characteristic of management domain dynamic partition in the satellite network, the login and logout mechanism of the satellite network dynamic management domain partition was proposed in the paper. In the mechanism, a ground branch-station sends the packets of login broadcasting to satellites in view. After received the packets, the SNMP agents on the satellites adopt link-delay test to respond. According to the mechanism, the SNMP primitives were extended, and the new added primitives were as follows: broadcasting, login, login confirmation,delay_testing, test responses, and logout. The definition of primitives, which followed RFC1157 criterion, could be encoded by the BER coding. The policy of the dynamic management domain partition on the basis of the login and logout mechanism, which was supported by the SNMP protocol, was realized by the design of the extended primitives.

Keywords: Satellites Network, network management, communication primitive, SNMP

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Authors: Ong Sing Goh, C. Ardil, Wilson Wong, Chun Che Fung

Abstract:

The evaluation of conversational agents or chatterbots question answering systems is a major research area that needs much attention. Before the rise of domain-oriented conversational agents based on natural language understanding and reasoning, evaluation is never a problem as information retrieval-based metrics are readily available for use. However, when chatterbots began to become more domain specific, evaluation becomes a real issue. This is especially true when understanding and reasoning is required to cater for a wider variety of questions and at the same time to achieve high quality responses. This paper discusses the inappropriateness of the existing measures for response quality evaluation and the call for new standard measures and related considerations are brought forward. As a short-term solution for evaluating response quality of conversational agents, and to demonstrate the challenges in evaluating systems of different nature, this research proposes a blackbox approach using observation, classification scheme and a scoring mechanism to assess and rank three example systems, AnswerBus, START and AINI.

Keywords: Evaluation, conversational agents, Response Quality, chatterbots

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Authors: Junjie Gao, Guishi Deng

Abstract:

In order to integrate knowledge in heterogeneous case-based reasoning (CBR) systems, ontology-based CBR system has become a hot topic. To solve the facing problems of ontology-based CBR system, for example, its architecture is nonstandard, reusing knowledge in legacy CBR is deficient, ontology construction is difficult, etc, we propose a novel approach for semi-automatically construct ontology-based CBR system whose architecture is based on two-layer ontology. Domain knowledge implied in legacy case bases can be mapped from relational database schema and knowledge items to relevant OWL local ontology automatically by a mapping algorithm with low time-complexity. By concept clustering based on formal concept analysis, computing concept equation measure and concept inclusion measure, some suggestions about enriching or amending concept hierarchy of OWL local ontologies are made automatically that can aid designers to achieve semi-automatic construction of OWL domain ontology. Validation of the approach is done by an application example.

Keywords: OWL ontology, Case-based Reasoning, FormalConcept Analysis, Knowledge Integration

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Authors: Sattar Al-Jabair, Laith J. Habeeb

Abstract:

In this work, the natural convection in a concentric annulus between a cold outer inclined square enclosure and heated inner circular cylinder is simulated for two-dimensional steady state. The Boussinesq approximation was applied to model the buoyancy-driven effect and the governing equations were solved using the time marching approach staggered by body fitted coordinates. The coordinate transformation from the physical domain to the computational domain is set up by an analytical expression. Numerical results for Rayleigh numbers 103 , 104 , 105 and 106, aspect ratios 1.5 , 3.0 and 4.5 for seven different inclination angles for the outer square enclosure 0o , -30o , -45o , -60o , -90o , -135o , -180o are presented as well. The computed flow and temperature fields were demonstrated in the form of streamlines, isotherms and Nusselt numbers variation. It is found that both the aspect ratio and the Rayleigh number are critical to the patterns of flow and thermal fields. At all Rayleigh numbers angle of inclination has nominal effect on heat transfer.

Keywords: natural convection, concentric annulus, square inclined enclosure

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Authors: Hazem M. El-Bakry, Qiangfu Zhao

Abstract:

Recently, fast neural networks for object/face detection were presented in [1-3]. The speed up factor of these networks relies on performing cross correlation in the frequency domain between the input image and the weights of the hidden layer. But, these equations given in [1-3] for conventional and fast neural networks are not valid for many reasons presented here. In this paper, correct equations for cross correlation in the spatial and frequency domains are presented. Furthermore, correct formulas for the number of computation steps required by conventional and fast neural networks given in [1-3] are introduced. A new formula for the speed up ratio is established. Also, corrections for the equations of fast multi scale object/face detection are given. Moreover, commutative cross correlation is achieved. Simulation results show that sub-image detection based on cross correlation in the frequency domain is faster than classical neural networks.

Keywords: Conventional Neural Networks, Fast Neural Networks, Cross Correlation in the Frequency Domain.

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Authors: P. Jelodarian , E. Farshidi

Abstract:

In this paper, a new approach for design of a fully differential second order current mode continuous-time sigma-delta modulator is presented. For circuit implementation, square root domain (SRD) translinear loop based on floating-gate MOS transistors that operate in saturation region is employed. The modulator features, low supply voltage, low power consumption (8mW) and high dynamic range (55dB). Simulation results confirm that this design is suitable for data converters.

Keywords: Sigma-delta, current-mode, translinear loop, geometric mean, squarer/divider.

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Authors: R. Damaševičius

Abstract:

System-level design based on high-level abstractions is becoming increasingly important in hardware and embedded system design. This paper analyzes meta-design techniques oriented at developing meta-programs and meta-models for well-understood domains. Meta-design techniques include meta-programming and meta-modeling. At the programming level of design process, metadesign means developing generic components that are usable in a wider context of application than original domain components. At the modeling level, meta-design means developing design patterns that describe general solutions to the common recurring design problems, and meta-models that describe the relationship between different types of design models and abstractions. The paper describes and evaluates the implementation of meta-design in hardware design domain using object-oriented and meta-programming techniques. The presented ideas are illustrated with a case study.

Keywords: Design patterns, meta-design, meta-modeling, metaprogramming.

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Authors: M. Ketcham, S. Vongpradhip

Abstract:

In this paper, an innovative watermarking scheme for audio signal based on genetic algorithms (GA) in the discrete wavelet transforms is proposed. It is robust against watermarking attacks, which are commonly employed in literature. In addition, the watermarked image quality is also considered. We employ GA for the optimal localization and intensity of watermark. The watermark detection process can be performed without using the original audio signal. The experimental results demonstrate that watermark is inaudible and robust to many digital signal processing, such as cropping, low pass filter, additive noise.

Keywords: Intelligent Audio Watermarking, GeneticAlgorithm, DWT Domain.

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Authors: Shai Sarussi

Abstract:

Let S be an integral domain with field of fractions F and let A be an F-algebra. An S-subalgebra R of A is called S-nice if R∩F = S and the localization of R with respect to S \{0} is A. Denoting by W the set of all S-nice subalgebras of A, and defining a notion of open sets on W, one can view W as a T0-Alexandroff space. A characterization of the property of immediate neighbors in an Alexandroff topological space is given, in terms of closed and open subsets of appropriate subspaces. Moreover, two special subspaces of W are introduced, and a way in which their closed and open subsets induce W is presented.

Keywords: Algebras over integral domains, Alexandroff topology, immediate neighbors, integral domains.

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Authors: A. Bahmanikashkouli, O.R. Bahadori Nezhad

Abstract:

In this article, the phenomenon of nonlinear consolidation in saturated and homogeneous clay layer is studied. Considering time-varied drainage model, the excess pore water pressure in the layer depth is calculated. The Generalized Differential Quadrature (GDQ) method is used for the modeling and numerical analysis. For the purpose of analysis, first the domain of independent variables (i.e., time and clay layer depth) is discretized by the Chebyshev-Gauss-Lobatto series and then the nonlinear system of equations obtained from the GDQ method is solved by means of the Newton-Raphson approach. The obtained results indicate that the Generalized Differential Quadrature method, in addition to being simple to apply, enjoys a very high accuracy in the calculation of excess pore water pressure.

Keywords: Generalized Differential Quadrature method, Nonlinear consolidation, Nonlinear system of equations, Time-varied drainage

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Authors: Ricardo Avila, Gabriel Lopes, Vania Vidal, Jose Macedo

Abstract:

This article offers a approach to the automatic discovery of semantic concepts and links in the domain of Oil Exploration and Production (E&P). Machine learning methods combined with textual pre-processing techniques were used to detect local patterns in texts and, thus, generate new concepts and new semantic links. Even using more specific vocabularies within the oil domain, our approach has achieved satisfactory results, suggesting that the proposal can be applied in other domains and languages, requiring only minor adjustments.

Keywords: Semantic links, data mining, linked data, SKOS.

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Authors: Amir Badkoubeh, Guchuan Zhu

Abstract:

This paper addresses the problem of asymptotic tracking control of a linear parabolic partial differential equation with indomain point actuation. As the considered model is a non-standard partial differential equation, we firstly developed a map that allows transforming this problem into a standard boundary control problem to which existing infinite-dimensional system control methods can be applied. Then, a combination of energy multiplier and differential flatness methods is used to design an asymptotic tracking controller. This control scheme consists of stabilizing state-feedback derived from the energy multiplier method and feed-forward control based on the flatness property of the system. This approach represents a systematic procedure to design tracking control laws for a class of partial differential equations with in-domain point actuation. The applicability and system performance are assessed by simulation studies.

Keywords: Tracking Control, In-domain point actuation, PartialDifferential Equations.

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Authors: Jungho Moon, Lae-Jeong Park

Abstract:

This paper introduces a signal monitoring program developed with a view to helping electrical engineering students get familiar with sensors with digital output. Because the output of digital sensors cannot be simply monitored by a measuring instrument such as an oscilloscope, students tend to have a hard time dealing with digital sensors. The monitoring program runs on a PC and communicates with an MCU that reads the output of digital sensors via an asynchronous communication interface. Receiving the sensor data from the MCU, the monitoring program shows time and/or frequency domain plots of the data in real time. In addition, the monitoring program provides a serial terminal that enables the user to exchange text information with the MCU while the received data is plotted. The user can easily observe the output of digital sensors and configure the digital sensors in real time, which helps students who do not have enough experiences with digital sensors. Though the monitoring program was programmed in the Matlab programming language, it runs without the Matlab since it was compiled as a standalone executable.

Keywords: Digital sensor, MATLAB, MCU, signal monitoring program.

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Authors: Wen-Shyong Tzou, Chih-Ching Huang, Chin-Hwa Hu, Ying-Tsang Lo, Tun-Wen Pai, Chia-Yin Chiang, Chung-Hao Li, Hong-Jyuan Jian

Abstract:

Plasmin plays an important role in the human circulatory system owing to its catalytic ability of fibrinolysis. The immediate injection of plasmin in patients of strokes has intrigued many scientists to design vectors that can transport plasmin to the desired location in human body. Here we predict the structure of human plasmin and investigate the interaction of plasmin with the gold-nanoparticle. Because the crystal structure of plasminogen has been solved, we deleted N-terminal domain (Pan-apple domain) of plasminogen and generate a mimic of the active form of this enzyme (plasmin). We conducted a simulated annealing process on plasmin and discovered a very large conformation occurs. Kringle domains 1, 4 and 5 had been observed to leave its original location relative to the main body of the enzyme and the original doughnut shape of this enzyme has been transformed to a V-shaped by opening its two arms. This observation of conformational change is consistent with the experimental results of neutron scattering and centrifugation. We subsequently docked the plasmin on the simulated gold surface to predict their interaction. The V-shaped plasmin could utilize its Kringle domain and catalytic domain to contact the gold surface. Our findings not only reveal the flexibility of plasmin structure but also provide a guide for the design of a plasmin-gold nanoparticle.

Keywords: Docking, gold nanoparticle, molecular simulation, plasmin.

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