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International Conference on High Performance Computing & Simulation (HPCS)

作者： Elias Kouskoumvekakis Dimitrios Soudris Elias S. Manolakos Department of Informatics and Telecommunications University of Athens Greece School of Electrical & Computer Engineering National Technical University of Athens Greece

Stochastic simulation of large-scale biochemical reaction networks is becoming essential for Systems Biology. It enables the in-silico investigation of complex biological system dynamics under different conditions and intervention strategies, while also taking into account the inherent “biological noise” especially present in the low species count regime. It is however a great computational challenge since in practice we need to execute many repetitions of a complex simulation model to assess the average and extreme cases behavior of the dynamical system it represents. The problem's work scales quickly, with the number of repetitions required and the number of reactions in the bio-model. The worst case scenario s when there is a need to run thousands of repetitions of a complex model with thousands of reactions. We have developed a stochastic simulation software framework for many- and multi-core CPUs. It is evaluated using Intel's experimental many-cores Single-chip Cloud computer (SCC) CPU and the latest generation consumer grade Core i7 multi-core Intel CPU, when running Gillespie's First Reaction Method exact stochastic simulation algorithm. It is shown that emerging many-core NoC processors can provide scalable performance achieving linear speedup as simulation work scales in both dimensions.

关键词： Biological system modeling Computational modeling Stochastic processes Program processors Multicore processing Hardware

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Spaler: Spark and GraphX based de novo genome assembler

Spaler: Spark and GraphX based de novo genome assembler

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IEEE International Conference on Big Data

作者： Anas Abu-Doleh Ümit V. Çatalyürek Dept. of Electrical and Computer Engineering Ohio State University Dept. of Biomedical Informatics Ohio State University

The recent advancements in high-throughput genome sequencing technologies have accelerated the efficient discovery of novel genomes. De novo assembly is the first and one of the most computationally intensive step to analyze such novel genomes. In this work, we addressed the problem of parallelizing the de Bruijn graph based de novo genome sequence assembly on distributed memory systems. We proposed a new tool, Spaler, which assembles short reads efficiently and accurately. Spaler is based on Spark framework and GraphX API. We compared the performance of Spaler to other distributed memory based assemblers, in particular, ABySS, Ray and SWAP-Assembler. The results show that Spaler scales better than existing tools and produces comparable or better results in terms of solution quality.

关键词： Merging Assembly Genomics Bioinformatics Indexes DNA Sparks

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Design of a small ultra wideband antenna using a genetic algorithm approach

Design of a small ultra wideband antenna using a genetic alg...

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Internet Technologies and Applications (ITA)

作者： Mohammed H. Miry Ghaida A. Al-Suhail Fathi Abdussalam M. B. Child R. A. Abd-Alhameed Electrical Engineering Department University of Technology Basra University Basra Iraq Computer Engineering Department Basra University Basra Iraq School of Engineering and Informatics University of Bradford Bradford UK

This paper addresses the design and optimisation of a physically small and cost effective printed antenna for full-band UWB radio applications. A genetic algorithm assisted optimisation is used to achieve the physical dimensioning and full-band operation. The antenna is realized as a printed slot cut radiator fixed over a trapezoidal ground plane, the antenna dimensions are 21.6mm × 18.8mm × 1.6mm. The prototype antenna performance is in line with the FCC regulations, with an impedance bandwidth of 10 dB or better across the 2.1GHz - 13.2GHz frequency range, and a suitable omni-directional radiation pattern.

关键词： Antenna measurements Antenna radiation patterns Ultra wideband antennas Prototypes Loss measurement Data models

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40 Gb/s FPGA implementation of a reduced complexity volterra DFE for DQPSK optical links

40 Gb/s FPGA implementation of a reduced complexity volterra...

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International Conference on Transparent Optical Networks

作者： M. Nanou A. Emeretlis C. Politi G. Theodoridis K. Georgoulakis G.O. Glentis Department of Informatics and Telecommunications University of Peloponnese Tripoli Greece Department of Electrical and Computer Engineering University of Patras Patras Greece

A low complexity MIMO Volterra Decision Feedback Equalizers (VDFE) for optical transmission systems employing NRZ-DQPSK signalling is proposed. Based on a comparative study performed by means of simulations, it is proved that the proposed equalizers maintain the required efficiency in terms of BER, achieving significant reduction in terms of complexity. Also, suitable architectures for high-speed FPGA implementations are presented. A 8-input 2-output low complexity VDFE involving three taps feed-forward filtering and two taps backward filtering was implemented on a single state-of-the-art FPGA. The target rate of 40 Gb/s is achieved by applying extensive pipelining and parallelism and fully exploiting specific FPGA features.

关键词： Field programmable gate arrays Complexity theory Optical fibers Optical filters Equalizers Optical fiber communication Parallel processing

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Erratum to: Towards the abstract system theory of system science for cognitive and intelligent systems

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Complex & Intelligent Systems 2016年第1期1卷 23-23页

作者： Yingxu Wang Laboratory for Computational Intelligence and Software Science International Institute of Cognitive Informatics and Cognitive Computing (ICIC) Department of Electrical and Computer Engineering Schulich School of Engineering and Hotchkiss Brain Institute University of Calgary Calgary Canada

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Improving the quality of experience in terms of SINR by modelling a millimetre wave pico-cellular network: A potential (5G) cellular network with a pico-cell technology deployment at 28 GHz operating frequency

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International Journal of Wireless and Mobile Computing 2015年第4期8卷 329-338页

作者： Zoubi, Zaid M. Vial, Peter James Premaratne, Prashan Alshbatat, Abdel Ilah Nour School of Electrical Computer and Telecommunications Engineering Faculty of Informatics University of Wollongong Northfields Avenue WollongongNSW2522 Australia Electrical Engineering Department Tafila Technical University P.O. Box 179 Tafila66110 Jordan

Fifth generation technology (5G) is causing researchers to find ways to maximise the mobile telecommunication network capacity. This term has led to the discovery that there is a vast spectrum in the millimetre wave (mmWave) band between 3 GHz and 300 GHz which can be used to deploy small-cell technology over a highly populated service area. This paper proposes a 5G cellular system with a multi-pico cell deployment at 28 GHz operating frequency in order to reduce the signal-to-interference-noise ratio and thus improve the quality of user experience (QoE). Our study also provides a comparison between the suggested mmWave model and the cellular Fourth Generation/Long Term Evolution (4G/LTE) at 1900 MHz. We established and tested both systems over a 1.2 km2 service area. Finally, we investigated that our proposed system enabled a cell throughput three times the maximum cell throughput of 4G/LTE1900. © 2015 Inderscience Enterprises Ltd.

关键词： Millimeter waves

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Modeling and Simulation of Molecular Communication Systems With a Reversible Adsorption Receiver

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IEEE Transactions on Molecular, Biological and Multi-Scale Communications 2015年第4期1卷 347-362页

作者： Yansha Deng Adam Noel Maged Elkashlan Arumugam Nallanathan Karen C. Cheung Department of Informatics King’s College London London U.K. School of Electrical Engineering and Computer Science University of Ottawa Ottawa ON Canada Queen Mary University of London London U.K. Department of Electrical and Computer Engineering University of British Columbia Vancouver BC Canada

In this paper, we present an analytical model for the diffusive molecular communication (MC) system with a reversible adsorption receiver in a fluid environment. The widely used concentration shift keying is considered for modulation. The time-varying spatial distribution of the information molecules under the reversible adsorption and desorption reaction at the surface of a receiver is analytically characterized. Based on the spatial distribution, we derive the net number of adsorbed information molecules expected in any time duration. We further derive the net number of adsorbed molecules expected at the steady state to demonstrate the equilibrium concentration. Given the net number of adsorbed information molecules, the bit error probability of the proposed MC system is analytically approximated. Importantly, we present a simulation framework for the proposed model that accounts for the diffusion and reversible reaction. Simulation results show the accuracy of our derived expressions, and demonstrate the positive effect of the adsorption rate and the negative effect of the desorption rate on the error probability of reversible adsorption receiver with last transmit bit-1. Moreover, our analytical results simplify to the special cases of a full adsorption receiver and a partial adsorption receiver, both of which do not include desorption.

关键词： Receivers Adsorption Transmitters Error probability Biological system modeling Analytical models Surface treatment

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Analysis of wind ramp events using their conditional probabilities from PCA 3D tables

Analysis of wind ramp events using their conditional probabi...

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International Scientific Conference on Electric Power engineering (EPE)

作者： Jana Heckenbergerova Marek Janata Petr Musilek Jianhui Wang Electrical Engineering and Informatics University Pardubice Pardubice Czech Republic Electrical and Computer Engineering University of Alberta Edmonton Canada Energy Systems Division Argonne National Laboratory Argonne IL USA

Wind is one of the fastest growing sources of renewable energy. However, its intermittency and stochastic nature often hamper integration of wind-generated energy in electric power networks. The most significant obstacles to efficient wind integration are the wind ramps, sudden changes of wind power output caused by dramatic changes in wind speed. Most ramp prediction methods derive future ramp estimates from forecast power series. This contribution suggests a different approach that would directly analyze wind power time series and other weather parameters to identify specific patterns and dependencies signaling approaching ramp events. In this paper, the 3D tables of ramp events' conditional probabilities are evaluated using principal component analysis. Two different datasets are analyzed. First one contains power production hourly collected from August 2011 to July 2012 on sample wind farm located close to Lethbridge, AB Canada. The other consists of total BPA wind power production in 2013 with 5 minute resolution. Frequency tables for the first three principal components are used to evaluate the conditional probability of a forthcoming wind ramp event. Utilization of resulting 3D tables for wind ramp event forecast is tested on the last quarter of the data. Advantage of proposed methodology compared to conventional methods is that numerical weather prediction (NWP) model producing wind forecasts is not required.

关键词： Principal component analysis Wind power generation Wind forecasting Three-dimensional displays Probability Time series analysis

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An Erlang Multirate Loss Model Supporting Elastic Traffic under the Threshold Policy

An Erlang Multirate Loss Model Supporting Elastic Traffic un...

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IEEE International Conference on Communications

作者： Ioannis D. Moscholios Michael D. Logothetis Anthony C. Boucouvalas Vassilios G. Vassilakis Dept. of Informatics & Telecommunications University of Peloponnese WCL Dept. of Electrical and Computer Engineering University of Patras Dept. of Electronic Engineering University of Surrey

ISBN: (纸本)9781467364300

In this paper, we propose a multirate teletraffic loss model of a single link with certain bandwidth capacity that accommodates Poisson arriving calls, which can tolerate bandwidth compression (elastic traffic), under the threshold policy. When compression occurs, the service time of new and in-service calls increases. The threshold policy provides different QoS among service-classes by limiting the number of calls of a service-class up to a predefined threshold, which can be different for each service-class. Due to the bandwidth compression mechanism, the steady state probabilities in the proposed model do not have a product form solution. However, we approximate the model by a reversible Markov chain, and prove recursive formulas for the calculation of call blocking probabilities and link utilization. The accuracy of the proposed formulas is verified through simulation and found to be very satisfactory.

关键词： Poisson Process Elastic Calls Threshold Policy Call Blocking Recursive Formula

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An accurate rating aggregation method for generating item reputation

An accurate rating aggregation method for generating item re...

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International Conference on Data Science and Advanced Analytics (DSAA)

作者： Ahmad Abdel-Hafez Yue Xu Audun J⊘sang School of Electrical Engineering and Computer Science Queensland University of Technology Brisbane Australia Department of Informatics University of Oslo Oslo Norway

Many websites presently provide the facility for users to rate items quality based on user opinion. These ratings are used later to produce item reputation scores. The majority of websites apply the mean method to aggregate user ratings. This method is very simple and is not considered as an accurate aggregator. Many methods have been proposed to make aggregators produce more accurate reputation scores. In the majority of proposed methods the authors use extra information about the rating providers or about the context (e.g. time) in which the rating was given. However, this information is not available all the time. In such cases these methods produce reputation scores using the mean method or other alternative simple methods. In this paper, we propose a novel reputation model that generates more accurate item reputation scores based on collected ratings only. Our proposed model embeds statistical data, previously disregarded, of a given rating dataset in order to enhance the accuracy of the generated reputation scores. In more detail, we use the Beta distribution to produce weights for ratings and aggregate ratings using the weighted mean method. Experiments show that the proposed model exhibits performance superior to that of current state-of-the-art models.

关键词： Computational modeling Shape Reliability Uncertainty Gaussian distribution Aggregates Probability distribution

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