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Geometric optimization methods for the analysis of gene expression data

Geometric optimization methods for the analysis of gene expr...

引用

作者： Journée, Michel Teschendorff, Andrew E. Absil, Pierre-Antoine Tavaré, Simon Sepulchre, Rodolphe Department of Electrical Engineering and Computer Science University of Liège Belgium Breast Cancer Functional Genomics Program Cancer Research UK Cambridge Research Institute University of Cambridge Robinson Way Cambridge CB2 0RE United Kingdom Department of Mathematical Engineering Université catholique de Louvain Belgium

ISBN: (纸本)9783540737490

DNA microarrays provide such a huge amount of data that unsupervised methods are required to reduce the dimension of the data set and to extract meaningful biological information. This work shows that Independent Component Analysis (ICA) is a promising approach for the analysis of genome-wide transcriptomic data. The paper first presents an overview of the most popular algorithms to perform ICA. These algorithms are then applied on a microarray breast-cancer data set. Some issues about the application of ICA and the evaluation of biological relevance of the results are discussed. This study indicates that ICA significantly outperforms Principal Component Analysis (PCA).

关键词： Independent component analysis

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An improved TCAM-based IP lookup engine

An improved TCAM-based IP lookup engine

引用

IEEE Workshop on High Performance Switching and Routing

作者： Hui Yu Jing Chen Jianping Wang S. Q. Zheng Mehrdad Nourani Computer Engineering Program University of Texas Dallas Richardson TX USA Telecommunications Engineering Program University of Texas Dallas Richardson TX USA Department of Computer Science City University of Hong Kong Hong Kong China Department of Computer Science University of Texas Dallas Richardson TX USA Department of Electrical Engineering University of Texas Dallas Richardson TX USA

IP lookup is a key task in packet processing to guarantee the high performance of the IP routers. It has been proposed to use TCAMs to implement IP-lookup accelerators for IP forwarding. In the paper, a new TCAM-based IP-lookup scheme MSMB-LPT is proposed and studied. It is shown that MSMB-LPT scheme significantly improve the performance of the state-of-art MSMB-PT scheme in terms of speedup and power consumption by simulations. These performance improvements are achieved with reduced cost.

关键词： Energy consumption Costs Routing Design engineering computer science Internet Traffic control Search engines Telecommunication computing Throughput

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Evolving artificial neural network using simple augmenting weight matrix method

Evolving artificial neural network using simple augmenting w...

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IEEE International Conference on Industrial Informatics (INDIN)

作者： Dong-Hyun Lee Ju-Jang Lee Robotics Program Korea Advanced Institute of Science and Technology Daejeon South Korea Electrical Engineering and Computer Science Korea Advanced Institute of Science and Technology Daejeon South Korea

In this paper, a simple method is proposed to evolve artificial neural networks(ANNs) using augmenting weight matrix method(AWMM). ANNs' architecture and connection weights can be evolved simultaneously by AWMM, and their structures incrementally are growing up from minimal structure. It is a non-mating method. It employs 5 mutation operators: add connection, add node, delete connection, delete node, and new initial weight. And the connection weight is trained by the simplified alopex method, which is a correlation based method for solving optimization problem. In AWMM, structural information is encoded to weighting matrix, and the matrix is augmenting as the hidden nodes are added.

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Mean-shift tracker with face-adjusted model

Mean-shift tracker with face-adjusted model

引用

International Conference on Control, Automation and Systems ( ICCAS)

作者： Jeehyun Goya Choe Joon-Hong Seok Ju-Jang Lee Robotics Program Korea Advanced Institute of Science and Technology Daejeon South Korea Electrical Engineering and Computer Science Korea Advanced Institute of Science and Technology Daejeon South Korea

Mean-shift algorithm shows robust performances in various object-tracking technologies including face tracking. Due to its robustness and accuracy, mean-shift algorithm is regarded as one of the best ways to apply in object-tracking technology in computer vision fields. However, it has a drawback of getting into a bottleneck state when faced with a speedy object moving beyond its window size within one image frame interval time. The time required to calculate mean-shift vector could be much lessened with lesser memory when color model is adjusted to the previously known target information. This paper shows the building process of target-adjusted model with a non-uniform quantization. The target color model dealt in this paper is the one used for deriving mean-shift vector. It is a kernel model containing both the color and distance information. This paper gives scheme to efficiently deal with color information in the model. Through a proper selection of color bins, unimportant color values were reduced to a small amount. As a result, the computing time of the mean-shift vector in face-tracking was shortened while maintaining robustness and accuracy.

关键词： Target tracking Face detection Robotics and automation Electronic mail Robustness Quantization Kernel Pixel Focusing Face recognition

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Fuzzy Fusion for Affective State Assessment in Distance Learning Based on Image Detection

Fuzzy Fusion for Affective State Assessment in Distance Lear...

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2008 International Conference on Audio，Language and Image Processing(2008国际声音、语言、图像过程大会)

作者： Kuoan Hwang Chiahao Yang Department of Computer Science and Information Engineering & Graduate Institute of Networking and Co Graduate Institute of Informatics Doctoral program Chaoyang University of Technology

Distance learning is a learning style that can overcome the limitation of time and space. Because of the distance, teachers can not handle the student's learning situation, and they do not know whether the student is attentive, drowsy or absent. If teachers can know the student's affective state, they can overcome the difficult. The research applies the image recognition technologies to capture the face images of students when they are learning and analyzes their face features to evaluate the student's affective state by Fuzzy Integral. Finally, teachers can monitor the student's behavior by the detection results on the system interface.

关键词： Distance learning Skin computers Distance measurement Face Image color analysis Education

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Using Bayesian Network for planning course registration model for undergraduate students

Using Bayesian Network for planning course registration mode...

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Inaugural IEEE-IES Digital EcoSystems and Technologies Conference, DEST

作者： Pathom Pumpuang Anongnart Srivihok Prasong Praneetpolgrang Somchai Numprasertchai Department of Computer Science Faculty of Science Kasetsart University Bangkok Thailand Master of Science Program in Information Technology Graduate School Sripatum University Bangkok Thailand Department of Computer Engineering Faculty of Engineer Kasetsart University Bangkok Thailand

ISBN: (纸本)9781424414895

The objective of this study is to propose a model for planning course registration by using a data mining technique: Bayesian network. The proposed model can be used to predict the sequences of courses to be registered by undergraduate students whose majors are computer science or engineering. The data set was obtained from student enrollments and include GPA and grades in each subject for first and second year students from a private university in Thailand. Evaluations show that the predictive power of this model is acceptable. The implications from this studypsilas findings suggest that the model can be applied for advising students in planning courses to be registered in each semester. Further, the model appears to be useful for improving curriculum development in order to fit both studentspsila and university requirements.

关键词： Bayesian methods Biological system modeling computers Education Computational modeling Brain modeling Brain models

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Evolving Turbo Code Interleavers by Genetic Algorithms

Evolving Turbo Code Interleavers by Genetic Algorithms

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International Conference on Complex, Intelligent and Software Intensive Systems, CISIS

作者： Ajith Abraham Pavel Krömer Nabil Ouddane Václav Snášel Iita Professorship Program School of Computer Science and Engineering Yonsei University Seoul South Korea IITA Professorship Program Yonsei University1 Seoul Republic of Korea Dept. of Computer Science VSB - Technical University of Ostrava Ostrava-Poruba Czech Republic

Since the appearance in 1993, first approaching the Shannon limit, the turbo codes gave a new direction for the channel encoding field, especially since they were adopted for multiple norms of telecommunications, such as deeper communication. To obtain an excellent performance, it is necessary to design robust turbo code interleaver. In this research, we investigated genetic algorithms as a promising optimization method to find good performing interleavers for large frame sizes. In this paper, we present our work, compare with several previous approaches and present experimental results.

关键词： Optimization Biological cells Gallium Genetic algorithms Turbo codes Evolutionary computation Encoding

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Air to liquid sample collection devices using microfluidic gas/liquid interfaces

Air to liquid sample collection devices using microfluidic g...

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IEEE SENSORS

作者： Jason Greenwood Daming Cheng Ye Liu Hongrui Jiang Electrical and Computer Engineering University of Wisconsin Madison Madison WI USA Materials Science Program University of Wisconsin Madison Madison WI USA

We demonstrate methods for collecting gaseous and aerosolized particles into microfluidic channels. Surface tension creates gas-liquid interfaces to permit an analyte to transfer from a gaseous environment to a liquid microfluidic channel. In one device, hydrophobic/hydrophilic boundaries create a virtual channel of liquid in which analyte is collected. In the other device, pinning points create circular pillars of air within a mircofluidic channel. Multiple methods demonstrate feasibility of these devices. Nesslerpsilas Reagent (NR) with gaseous ammonia (NH 3 ) showed the real-time and collection-for-later-analysis acquisition abilities. Deionized (DI) water with varying concentrations of gaseous ammonia (30%, 15%, and 7.5%) showed that the devices proportionally changed impedance (~50% per step) in real-time. Aerosolized solid particles showed that these devices were also able to collect larger sample analytes.

关键词： Microfluidics Glass Gold Surface tension Fabrication Atmosphere Microscopy Surface treatment computer interfaces Impedance

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Discovering Flow Anomalies: A SWEET Approach

Discovering Flow Anomalies: A SWEET Approach

引用

IEEE International Conference on Data Mining (ICDM)

作者： James M. Kang Shashi Shekhar Christine Wennen Paige Novak Department of Computer Science University of Minnesota MN USA Graduate Program in Water Resources Science University of Minnesota MN USA Department of Civil Engineering University of Minnesota MN USA

Given a percentage-threshold and readings from a pair of consecutive upstream and downstream sensors, flow anomaly discovery identifies dominant time intervals where the fraction of time instants of significantly mis-matched sensor readings exceed the given percentage-threshold. Discovering flow anomalies (FA) is an important problem in environmental flow monitoring networks and early warning detection systems for water quality problems. However, mining FAs is computationally expensive because of the large (potentially infinite) number of time instants of measurement and potentially long delays due to stagnant (e.g. lakes) or slow moving (e.g. wetland) water bodies between consecutive sensors. Traditional outlier detection methods (e.g. t-test) are suited for detecting transient FAs (i.e., time instants of significant mis-matches across consecutive sensors) and cannot detect persistent FAs (i.e., long variable time-windows with a high fraction of time instant transient FAs) due to a lack of a pre-defined window size. In contrast, we propose a Smart Window Enumeration and Evaluation of persistence-Thresholds (SWEET) method to efficiently explore the search space of all possible window lengths. Computation overhead is brought down significantly by restricting the start and end points of a window to coincide with transient FAs, using a smart counter and efficient pruning techniques. Experimental evaluation using a real dataset shows our proposed approach outperforms Nainodotve alternatives.

关键词： Birth disorders Pollution measurement Water pollution Sensor phenomena and characterization Rivers Water resources Lakes Condition monitoring Contamination Petroleum

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Personal Autonomic Desktop Manager with a Circulatory Computing Approach

Personal Autonomic Desktop Manager with a Circulatory Comput...

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5th IEEE International Workshop on engineering of Autonomic & Autonomous Systems (EASc 2008)

作者： Alberto Arkader Kopiler Ines de Castro Dutra Felipe M. G. Franca Systems Automation Department Electric Power Research Center Brazil Systems Engineering and Computer Science Program Federal University of Rio de Janeiro Brazil

In this paper we present the architecture for the Personal Autonomic Desktop Manager, a self managing application designed to act on behalf of the user in several aspects: protection, healing, optimization and configuration. The overall goal of this research is to improve the correlation of the autonomic self{sup}* properties and doing so also enhance the overall self-management capacity of the desktop (autonomicity). We introduce the Circulatory Computing (CC) model, a self-managing system initiative based on the biological metaphor of the cardiovascular system, and use its concepts in the design and implementation of the architecture.

关键词： Biology computing Biological system modeling Personal digital assistants Energy management Power system management computer networks Home computing engineering management computer architecture Environmental management

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