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International Conference on Technologies and Applications of Artificial Intelligence (TAAI)

作者： Chung-Wen Cho Yi-Hung Wu Chieh Yen Chun-Yen Chang Cloud Computing Center of Mobile Application Industrial Technology Research Institute Taiwan Department of Information & Computer Engineering Chung Yuan Christian University Taiwan Science Education Center National Taiwan Normal University Taiwan

Ridesharing has the great opportunity to reduce the consumption of energy and the emission of harmful gases, and to let people share the traffic costs with others. Most of the current ridesharing systems simply provide a number of candidates for users to choose. Time-consuming negotiation often discourages people from ridesharing. We propose a novel approach that assigns users to form ridesharing groups according to their routes and payments. Given a driver, our goal is to find a group of passengers who will pay the driver the most. Under the payment scheme, the passengers who share rides on the same route will equally share the expense with the driver. For the prompt response to an online system, our approach aims for the near-optimal group, where the available seats on the driver route are occupied by passengers as many as possible. Compared with the previous methods, the experiment results show that our approach incurs a little overhead but obtains answers of good quality, measured by the driver's saving, under various parameter settings.

关键词： Vehicles Cities and towns Estimation Google Educational institutions Indexes

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Context-specific miRNA regulation network predicts cancer prognosis

Context-specific miRNA regulation network predicts cancer pr...

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5th IEEE International Conference on Systems Biology, ISB 2011

作者： Zhou, Xionghui Liu, Juan Liu, Changning Rayner, Simon Liang, Fengji Ju, Jingfang Li, Yinghui Chen, Shanguang Xiong, Jianghui School of Computer Science Wuhan University Wuhan China Beijing China Key Laboratory of Intelligent Information Processing Institute of Computing Technology Chinese Academy of Sciences Beijing China State Key Laboratory of Virology Wuhan Institute of Virology Chinese Academy of Sciences Wuhan China Department of Pathology Stony Brook University Medical Center NY United States

ISBN: (纸本)9781457716669

MicroRNAs can regulate hundreds of target genes and play a pivotal role in a broad range of biological process. However, relatively little is known about how these highly connected miRNAs-target networks are remodelled in the context of various diseases. Here we examine the dynamic alteration of context-specific miRNA regulation to determine whether modified microRNAs regulation on specific biological processes is a useful information source for predicting cancer prognosis. A new concept, Context-specific miRNA activity (CoMi activity) is introduced to describe the statistical difference between the expression level of a miRNA's target genes and non-targets genes within a given gene set (context). The microarray gene expression profile of brain tumors from 356 patients (The Cancer Genome Atlas dataset) was converted into a CoMi activity pattern, and showed significant positive correlation with the corresponding miRNA expression pattern. In a breast cancer cohort, the differential CoMi activity between good prognosis (longer survival) vs. bad prognosis patients forms a scale-free network, which highlighted a group of important cancer-related microRNAs and GO terms, e.g. hsa-miR-34a and 'cell adhesion'. Then two breast cancer cohorts were used in outcome prediction in an independent test. Using a popular T-test feature selection method and a support vector machine (SVM) classifier with 10-fold cross-validation, the CoMi activity feature achieves an area under curve (AUC) of 0.7155, better than the AUC value of 0.6339 for feature selection based on mRNA expression. In an independent test, CoMi feature selection achieved an AUC of 0.6874. Survival analysis also shows signatures defined by CoMi activity was predictive of survival and superior to mRNAs signatures. In short, we have demonstrated the first interrogation of dynamic remodeling of context specific miRNAs regulation networks in cancer. The altered microRNAs regulation on specific contexts could be used to predi

关键词： Diseases

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Coupling of Length Scales: Hybrid Molecular Dynamics and Finite Element Approach for Multiscale Nanodevice Simulations

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MRS Online Proceedings Library 2011年第1期653卷 1-6页

作者： Elefterios Lidorikis Martina E. Bachlechner Rajiv K. Kalia George Z. Voyiadjis Aiichiro Nakano Priya Vashishta Concurrent Computing Laboratory for Materials Simulations and Biological Computation & Visualization Center Department of Physics & Astronomy and Department of Computer Science Louisiana State University Baton Rouge USA Advanced Computational Solid Mechanics Laboratory Department of Civil and Environmental Engineering Louisiana State University Baton Rouge USA

A hybrid molecular-dynamics/finite-element simulation scheme is applied to describe multiscale phenomena in nanodevices. The quality of both static and dynamic coupling between atomistic and continuum regions is studied. The hybrid scheme is used for the Si/Si3N4 interface problem (static coupling), and for the projectile impact on Si problem (dynamic coupling). Excellent agreement is found between hybrid and full molecular dynamics simulation results in the static case, and no wave reflections are found at the atomistic/continuum hand-shake in the dynamic case. The hybrid scheme is thus validated a powerful and cost effective method for performing multiscale simulations of nanodevices.

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computing Parametric Alignment of RNA Structures: visualization and Practice

Computing Parametric Alignment of RNA Structures: Visualizat...

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International Conference on Future computer sciences and Application (ICFCSA)

作者： Wangsen Feng Bei Zhang Lusheng Wang Key Laboratory of Network and Software Security Assurance of Ministry of Education Computing Center Beijing University Beijing China Department of Computer Science City University of Hong Kong Hong Kong China

Alignment of RNA structures is very important in biological research. Similar to pair-wise sequence alignment, there is often disagreement about how to weight matches, mismatches, indels and gaps when comparing two RNA structures. Here, we develop a visual tool for computing parametric alignment of two RNA structures. With this tool, users can see explicitly and completely the effect of parameter choices on the optimal alignments of RNA structures. The software is available for academic use (http://***/~lwang/software/ParaRNA/).

关键词： RNA Algorithm design and analysis Software algorithms Software Periodic structures computer science

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Erratum to “Government Information Networks — Mapping Electronic Governance cases through Public Administration concepts” [Government Information Quarterly 29S1 (2012) 1–10]

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Government Information Quarterly 2012年第2期29卷 311-311页

作者： Tomasz Janowski Theresa A. Pardo Jim Davies United Nations University International Institute for Software Technology P.O. Box 3058 Macao Center for Technology in Government University at Albany SUNY 187 Wolf Road Suite 301 Albany NY 12205 USA Computing Laboratory Department of Computer Science University of Oxford Room 461 Wolfson Building Parks Road Oxford OX1 3QD UK

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Ready-set-transfer! Technology transfer in the requirements engineering domain

Ready-set-transfer! Technology transfer in the requirements ...

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IEEE International Conference on Requirements Engineering

作者： Jane Cleland-Huang Daniela Damian Center of Excellence for Software Traceability (CoEST) School of Computing DePaul University Chicago IL USA Software Engineering Global interAction Laboratory (SEGAL) Department of Computer Science University of Victoria BC Canada

The primary goal of requirements engineering research is to propose, develop, and validate effective solutions for important practical problems. However practice has shown that successful projects often take from 20-25 years to reach the stage of full industry adoption, while many other projects fizzle out and never advance beyond the initial research phase. In this interactive panel, teams of researchers representing several different requirements engineering research areas, bring ideas for technology transfer to a panel of industrial and government practitioners. The teams proceed through a series of interactive presentations and receive feedback from panelists. Underlying the game-show genre of the panel is the more serious goal to foster conversation between practitioners and researchers in order to improve the effectiveness of technology transfer in the requirements engineering community.

关键词： Technology transfer Industries Communities Software Software engineering Educational institutions Conferences

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Simulation-Based Performance Analysis and Tuning for a Two-Level Directly Connected System

Simulation-Based Performance Analysis and Tuning for a Two-L...

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International Conference on Parallel and Distributed Systems (ICPADS)

作者： Ehsan Totoni Abhinav Bhatele Eric J. Bohm Nikhil Jain Celso L. Mendes Ryan M. Mokos Gengbin Zheng Laxmikant V. Kale Department of Computer Science University of Illinois at Urbana-Champaign Urbana IL USA Center of Applied Scientific Computing Lawrence Livermore National Laboratory Livermore CA USA National Center of Supercomputing Applications University of Illinois Urbana IL USA

Hardware and software co-design is becoming increasingly important due to complexities in supercomputing architectures. Simulating applications before there is access to the real hardware can assist machine architects in making better design decisions that can optimize application performance. At the same time, the application and runtime can be optimized and tuned beforehand. BigSim is a simulation-based performance prediction framework designed for these purposes. It can be used to perform packet-level network simulations of parallel applications using existing parallel machines. In this paper, we demonstrate the utility of BigSim in analyzing and optimizing parallel application performance for future systems based on the PERCS network. We present simulation studies using benchmarks and real applications expected to run on future supercomputers. Future petascale systems will have more than 100,000 cores, and we present simulations at that scale.

关键词： Noise Topology Tuning Network topology Routing Supercomputers Three dimensional displays

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Determining Event Ordering in Mobile Ad Hoc Networks

Determining Event Ordering in Mobile Ad Hoc Networks

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2011 International Conference on computer science and Network Technology(2011计算机科学与网络技术国际会议 ICCSNT 2011)

作者： Dan Wu Dawei Liu Yue Wang Weixiong Rao Bin Sheng Network & Telecommunication Division Guangdong Electric Power Design Institute China Joint Research Center in Ubiquitous Computing Macao Polytechnic Institute Macau School of Information Central University of Finance and Economics China Department of Computer Science University of Helsinki Finland Department of Computer Science and Engineering Shanghai Jiao Tong University China

Determining event ordering has always been a crucial issue in distributed computing. A well known model for describing event ordering is the happened-before relation. However, the traditional happened-before relation model is i-nadequate to faithfully characterize event ordering in recent emerging mobile ad hoc networks (MANETs), which usually have no fixed supporting infrastructure and may experience dynamic network topology changes. In this paper, we first propose a new relation, called the extended-happenedbefore relation, to model the ordering of events for a MANET. Then we present an algorithm to assign logical time to events such that the extendedhappened-before relation between events can be decided by comparing their tunestamps. We finally show how to construct consistent global snapshots in a MANET when the ordering of events can be determined.

关键词： Distributed computing Event ordering Logical tune Mobile ad hoc networks

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R-PASS: A Fast Structure-Based RNA Sequence Alignment Algorithm

R-PASS: A Fast Structure-Based RNA Sequence Alignment Algori...

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IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Yanan Jiang Weijia Xu Lee Parnell Thompson Robin R. Gutell Daniel P. Miranker Institute for Cellular and Molecular Biology University of Texas at Austin Austin USA Texas Advanced Computing Center University of Texas at Austin Austin USA Department of Computer Science University of Texas at Austin Austin USA

We present a fast pairwise RNA sequence alignment method using structural information, named R PASS (RNA Pairwise Alignment of Structure and Sequence), which shows good accuracy on sequences with low sequence identity and significantly faster than alternative methods. The method begins by representing RNA secondary structure as a set of structure motifs. The motifs from two RNAs are then used as input into a bipartite graph-matching algorithm, which determines the structure matches. The matches are then used as constraints in a constrained dynamic programming sequence alignment procedure. The R-PASS method has an O(nm) complexity. We compare our method with two other structure-based alignment methods, LARA and ExpaLoc, and with a sequence-based alignment method, MAFFT, across three benchmarks and obtain favorable results in accuracy and orders of magnitude faster in speed.

关键词： RNA Accuracy Compounds Vectors Bioinformatics Bipartite graph Complexity theory

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Field Emission Properties of BN/C and BN@C Hybrid Nanotubes

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MRS Online Proceedings Library (OPL) 2011年第1期739卷 H5.7-H5.7页

作者： Vincent Meunier Marco Buongiorno Nardelli William Shelton Christopher Roland Jerry Bernholc Thomas Zacharia Center for Computational Sciences and Computer Science and Mathematics Division Oak Ridge National Laboratory Oak Ridge TN Department of Physics North Carolina State University Raleigh NC Computing and Computational Sciences Directorate Oak Ridge National Laboratory Oak Ridge TN

Our simulations predict that boron-nitride (BN) doping in carbon nanotubes can greatly improve the field emission properties of these systems. The intrinsic electric field associated with the polarity of the B-N bond enhances the emitted current density through a reduction of the work function at the tip. Using a combination of real-space and plane-wave ab initio methods, we show that this effect is present in both coaxial (BN@C) and linear (BN/C) nanotubular assemblies. While in the coaxial geometry the improvement amounts to a factor of five, the current density is predicted to increase by up to two orders of magnitude in BN/C superlattices.

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