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International Conference on BioMedical Engineering and Informatics (BMEI)

作者： Fei Li Wenjian Xu Peng Li XiaoChen Bo Yuxing Peng Department of Computer Science National Laboratory of Parallel & Distributed Processing National University of Defense Technology Changsha China Beijing Institute of Radiation Medicine Beijing China

Due to the existence of systematic bias in the measurements, inter-chip normalization is required before integrated data analysis of multiple microarray datasets. Current inter-chip normalization methods rely on some assumptions, which can rarely be verified by experiments, such as the invariant expression level of housekeeping genes or the stability of statistical data distribution. In this paper, we present a highly verifiable inter-chip normalization method using genetic optimization algorithm, which depends only on a small number of housekeeping genes, and therefore facilitates experimental validation without any accuracy lost.

关键词： Genetic algorithms Gene expression Laboratories Data analysis Optimization methods Genomics Bioinformatics Statistical distributions Probes Computer science

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A compact analytical model for multi-island single electron transistors

A compact analytical model for multi-island single electron ...

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International Conference on ASIC

作者： Yaqing Chi Bingcai Sui Liang Fang Hailiang Zhou Haiqing Zhong He Sun National Laboratory for Parallel and Distributed Processing School of Computer National University of Defense Technology Hunan China National University of Defense Technology Changsha Hunan CN

Multi-island single electron transistor (SET) has become a promising candidate for the kernel device of the logic circuit in the near future. A novel compact analytical model for multi-island SET is proposed in terms of current. The new approach is based on the orthodox theory of single electron tunnelling and steady-state master equation. The model is accurate and fast compared with SIMON, and suitable for the ASIC design of multi-island SET circuit simulation.

关键词： Analytical models Single electron transistors

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SCQR - A P2P Query Routing Algorithm Based on Semantic Cluster

SCQR - A P2P Query Routing Algorithm Based on Semantic Clust...

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International Symposium on Intelligent Ubiquitous Computing and Education

作者： Shiyao Jin Gui-Ming Zhu School of Computer Science National University of Defense Technology Changsha China National Laboratory for Parallel and Distributed Processing National University of Defense Technology Changsha China

The low efficiency and uncertainty routing is correct is a problem for resource location of an unstructured p2p network. It is hard to achieve high query hit with small cost and low latency for such kind of network. In this paper, we present a p2p query routing algorithm which is based on semantic cluster (SCQR). SCQR makes nodes clustered according to their semantic, and each cluster elects a super-node as cluster computing node which is responsible for computing cluster semantic and establishing links with all neighbor cluster computing nodes. Query is routed among cluster computing nodes. SCQR achieves high query hit with small routing latency and query cost in both analytical theoretical and experimental studies.

关键词： Query processing Clustering algorithms Peer to peer computing Routing Delay Costs Computer networks Frequency Floods Intelligent networks

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A case study on system-level modeling by aspect-oriented programming

A case study on system-level modeling by aspect-oriented pro...

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IEEE International Symposium on Quality Electronic Design

作者： Feng Liu Otmane Ait Mohamed Xiaoyu Song Qingping Tan National Laboratory for Parallel and Distributed Processing Hunan China ECE Department Concordia University Montreal QUE Canada ECE Department Portland State University Portland OR USA

The paper presents a novel and synergistic system-level modeling approach based on aspect-oriented programming (AOP) and SystemC. A case study on a 128-bit binary floating-point adder is performed to demonstrate the modeling strength of the approach. The validation experiment shows the effectiveness of the proposed approach. This work constitutes a first attempt to employ AOP in modeling digital systems.

关键词： Hardware Kernel Computer languages parallel programming Processor scheduling distributed processing Electronic mail Adders Digital systems Design methodology

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A Semiautomatic Method to Achieve Independent and Intact Gene Ontology Slim (InitGO) and its Cytoscape Plugin Implementation

A Semiautomatic Method to Achieve Independent and Intact Gen...

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International Conference on BioMedical Engineering and Informatics (BMEI)

作者： Qijun Liu Zhenghua Wang Hanchang Sun Hao Guo Wanlin Liu Yunping Zhu National Laboratory of Parallel & Distributed Processing National University of Defence Technology Changsha China State Key Laboratory of Proteomics Beijing Proteome Research Center Beijing Institute of Radiation Medicine Beijing China

To conduct a systemic analysis of biological networks function distribution and function modules, we present a semiautomatic method to achieve independent and intact GO slim (InitGO) based on graph operations and GO hierarchy structure. Our method is packed into a user-friendly Cytoscape plugin named InitGO. The application of InitGO to yeast transcriptional factors regulatory network shows that the network has function modularity, offering evidence that our method is effective for defining function modules. InitGO plugin and source codes are available on request from the authors.

关键词： Ontologies Biological information theory Independent component analysis Fungi Data visualization Systems biology Bioinformatics Laboratories distributed processing Transfer functions

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Revealing the functional modularity of yeast transcriptional regulatory network by using a novel topological measurement

Revealing the functional modularity of yeast transcriptional...

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International Conference on Computer Science and Information Technology (CSIT)

作者： Qijun Liu Zhenghua Wang Mansheng Li Dong Li Yunping Zhu National Laboratory of Parallel & Distributed Processing National University of Defence Technology Changsha China State Key Laboratory of Proteomics Beijing Proteomics Research Center Beijing Institute of Radiation Medicine Beijing China

It has been reported that function implementations in biological systems, including transcriptional regulatory networks (TRN), show modular architecture. Analyzing functional modularity of biological networks can describe characteristics of function implementation and their "position" in biology systems from the systems perspective. Defining functional modules naturally, we bring up a novel measurement, cohesive degree (CD), to characterize the modularity. From this character, we know that not all of the corresponding modules of function annotations take on good modularity. Considering the ratio of the non-cohesive (zero-CD value) modules, TRN's functional modularity is also weaker than that of other biological network and integral ones. And, this is not caused by data integrity, but by the topology of itself. In fact, the modularity implementation of biological systems is mainly accomplished through the cooperation of several types of networks, not by TRN alonely.

关键词： Fungi Biochemistry Biological systems Proteins Gene expression Laboratories Electronic mail Proteomics Network topology Systems biology

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An Irregular cutting based distributed mapping algorithm for DVE systems

An Irregular cutting based distributed mapping algorithm for...

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Pacific-Asia Workshop on Computational Intelligence and Industrial Application, PACIIA

作者： Wei Zhang Hangjun Zhou Yuxing Peng Sikun Li Min Xi National Laboratory of Parallel and Distributed Processing School of Computer Science National University of Defense Technology Changsha China Department of Computer Science Xi'an Jiaotong University Xi'an China

distributed Virtual Environment (DVE) systems have become more and more important both in academic communities and the industries. To guarantee the load constrain, the physical world integrity and the virtual world integrity, the virtual environment should be divided into several parts and mapped to multiple servers, which are located in geographically different places. Many centralized algorithms based on regular cutting method are proposed to solve this problem. However, the dynamic property of clients and distributed property of the system make the existing algorithms unable to undertake it. In this paper, we propose a metric to measure the cutting quality and design a distributed mapping algorithm based on an irregular cutting. Simulation results show that our algorithm greatly decreases the costs of DVE systems for migration of clients and effectively improves the satisfaction degree of users.

关键词： Defense industry Virtual environment Computer industry Computer science Algorithm design and analysis Delay Partitioning algorithms Industrial training Computational intelligence Application software

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MEASURING THE INFLUENCE OF SOCIAL NETWORKS ON INFORMATION DIFFUSION ON BLOGSPHERES

MEASURING THE INFLUENCE OF SOCIAL NETWORKS ON INFORMATION DI...

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2009 International Conference on Machine Learning and Cybernetics(2009机器学习与控制论国际会议)

作者： TING WANG JIN-TAO TANG JI WANG School of Computer National University of Defense Technology.Changsha Hunan 410073 P.R.China National Laboratory for Parallel and Distributed Processing ChangSha Hunan 410073 China

As a typical social media in web2.0 era, blogs have become more and more important to information diffusion. Different from the traditional news, the information spread on blogs is primarily driven by users and their relations. According to this phenomenon, this paper addresses the novel problem of measuring the influence of social structures on information diffusion. This paper extracts the hidden communities and information diffusion networks on blogs, and proposes a novel quantitative measurement to investigate the influence of social networks structure on diffusion networks. The proposed methods measure the influence by utilizing a simple but effective graph similarity measuring method. The experiments demonstrate the effectiveness of the proposed algorithms and measurements, and discover the correlation between social networks and the diffusion of the "interest" topics, which indicates the necessity of using social structures for information detection and tracking on blogs.

关键词： Blogs information diffusion social networks graph similarity correlation measurement

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Computing Must and May Alias to Detect Null Pointer Dereference

Computing Must and May Alias to Detect Null Pointer Derefere...

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3rd International Symposium on Leveraging Applications of Formal Methods, Verification and Validation

作者： Ma, Xiaodong Wang, Ji Dong, Wei National Laboratory for Parallel and Distributed Processing China

ISBN: (纸本)9783540884781

This paper presents a novel algorithm to detect null pointer dereference errors. The algorithm utilizes both of the must and may alias information in a compact way to improve the precision of the detection. Using may alias information obtained by a fast flow- and context- insensitive analysis algorithm, we compute the must alias generated by the assignment statements and the must alias information is also used to improve the precision of the may alias. We can strong update more expressions using the must alias information, which will reduce the false positives of the detection for null pointer dereference. We have implemented our algorithm in the SUIF2 compiler infrastructure and the experiments results are as expected.

关键词： Information use

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Scheduling algorithm for long duration transaction based on cost of compensation

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Ruan Jian Xue Bao/Journal of Software 2009年第3期20卷 744-753页

作者： Zhu, Rui Guo, Chang-Guo Wang, Huai-Min School of Computer National University of Defense Technology Changsha 410073 China National Laboratory for Parallel and Distributed Processing National University of Defense Technology Changsha 410073 China

Transaction of service composition has long-lived feature which a global-transaction is divided into several distributed sub-transactions. Atomicity property is preserved by using compensating transactions, which semantically undo the effects of the completed sub-transactions, in case of global-transaction abort. However, the cost of compensation may be expensive and methods may be complex. To overcome this limitation, a novel scheduling algorithm named STCD (SubTransaction committing delay) is presented based on analysis of compensation. Different from traditional methods, sub-transactions determine the time of committing according to both the cost of compensation and the state of execution dynamically. The correctness of proposed algorithm is proved. Simulations show that STCD algorithm can confine the compensation sphere and reduce the cost of compensation. © by Institute of Software, the Chinese Academy of Sciences. All rights reserved.

关键词： Costs

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