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The structural analysis of protein sequences based on the quasi-amino acids code

Chinese Physics B 2009年第1期18卷 363-369页

作者：朱平唐旭清徐振源 School of Science Jiangnan University Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education Anhui University

Proteomics is the study of proteins and their interactions in a cell. With the successful completion of the Human Cenome Project, it comes the postgenome era when the proteomics technology is emerging. This paper studies protein molecule from the algebraic point of view. The algebraic system （∑, ＋, ＊） is introduced, where ∑ is the set of 64 codons. According to the characteristics of （∑, ＋, ＊）, a novel quasi-amino acids code classification method is introduced and the corresponding algebraic operation table over the set ZU of the 16 kinds of quasi-amino acids is established. The internal relation is revealed about quasi-amino acids. The results show that there exist some very close correlations between the properties of the quasi-amino acids and the codon. All these correlation relationships may play an important part in establishing the logic relationship between codons and the quasi-amino acids during the course of life origination. According to Ma F et al （2003 J. Anhui Agricultural University 30 439）, the corresponding relation and the excellent properties about amino acids code are very difficult to observe. The present paper shows that （ZU, ＋,×） is a field. Furthermore, the operational results display that the eodon tga has different property from other stop codons. In fact, in the mitochondrion from human and ox genomic codon, tga is just tryptophane, is not the stop codon like in other genetic code, it is the case of the Chen W C et al （2002 Acta Biophysiea Siniea 18（1） 87）. The present theory avoids some inexplicable events of the 20 kinds of amino acids code, in other words it solves the problem of ＇the 64 codon assignments of mRNA to amino acids is probably completely wrong＇ proposed by Yang （2006 Progress in Modern Biomedicine 6 3）.

关键词： algebraic operation quasi-amino acids code protein sequences structural analysis

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Tunnel morph model for time frequency bio-signal waveform processing

Tunnel morph model for time frequency bio-signal waveform pr...

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Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)

作者： Gang Zheng Shiliu Lian Shanling Mou Jia Qi Laboratory of Biological Signal and Intelligent Processing Tianjin Key Laboratory of Intelligence Computing and Novel Software Technology Tianjin University of Technology Tianjin China Tianjin University of Technology Tianjin CN China

In this paper, we proposed a tunnel morph model for bio-signal waveform in measuring their similarity. Firstly, the formal specifications of bio-signal waveforms are given. And then, a series of model establishing related definitions are presented. These definitions contain waveform segmentation; waveforms distance measurement, and tunnel width computation. Moreover, on the base of the model, a similarity measuring strategy which takes the curve feature of bio-signal into account was presented. In the end, the strategy was compared with other similarity measurement methods by AECG (Ambulatory Electrocardiogram) waveform data. The data are adopted from MIT/BIH arrhythmia database. Experiment results show that the sensitivity and the positive predictivity of the strategy based on tunnel morph model are prior to other strategies.

关键词： Electrocardiography Equations Biological system modeling Correlation Sensitivity Mathematical model

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On using Tabu Search for RNA secondary structure prediction

International Journal of Digital Content Technology and its ...

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International Journal of Digital Content Technology and its Applications 2010年第9期4卷 252-262页

作者： Liu, Yongguo Hao, Jianrui School of Computer Science Engineering University of Electronic Science and Technology of China Chengdu 611731 China Key Laboratory of Intelligent Computing Information Processing of Ministry of Education Xiangtan University Xiangtan 411105 China

In this article, a novel approach is proposed to predict RNA secondary structure called RNA secondary structure prediction based on Tabu Search (RNATS). In the RNATS algorithm, two search models, intensification search and diversification search, are developed to exploit the local regions around the current solution and explore the unvisited solution space, respectively. Simulation experiments are conducted on eight RNA sequences to show that the proposed method is feasible and effective.

关键词： Tabu search

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Shape Recognition and Retrieval Based on Edit Distance and Dynamic Programming

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Tsinghua Science and Technology 2009年第6期14卷 739-745页

作者：潘鸿飞梁栋唐俊王年李薇 Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education Anhui University

An important aim in pattern recognition is to cluster the given shapes. This paper presents a shape recognition and retrieval algorithm. The algorithm first extracts the skeletal features using the medial axis transform. Then, the features are transformed into a string of symbols with the similarity among those symbols computed based on the edit distance. Finally, the shapes are identified using dynamic programming. Two public datasets are analyzed to demonstrate that the present approach is better than previous approaches.

关键词： skeletal features medial axis transform edit distance dynamic programming

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Risk analysis of system security based on evidence theory

Risk analysis of system security based on evidence theory

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2010 International Conference on Computer Design and Applications, ICCDA 2010

作者： Xu, Peida Xu, Jianling Deng, Yong Su, Xiaoyan Key Laboratory of Digital Agricultural Early-warning Technology Ministry of Agriculture of China Beijing China Key Laboratory of Intelligent Computing and Information Processing of Ministry of Education Xiangtan University China School of Electronics and Information Technology Shanghai Jiao Tong University Shanghai China Grain Economics Institute Nanjing University of Finance and Economics Nanjing China Hangzhou Key Lab. of E-Business and Information Security Hangzhou Normal University Hanzhou Zhejiang China Hangzhou Key Lab. of E-Business and Information Security Hangzhou Normal University Shanghai China

ISBN: (纸本)9781424471638

Risk evaluation is very important to the design and improvement of physical protection systems. In this paper, an evaluation method of multi-source information fusion is proposed based on the D-S evidence theory. In the proposed method, each individual component of the protection system in the simulated plane is modeled. Then, the threat report of each component according to the specific tactics is determined based on its real environment. Finally, the comprehensive threat distribution is obtained based on through the D-S evidence theory to combine multi-sources information. The proposed method can easily applied to the evaluation of the effectiveness of the protection system. We make the total threat of the protection system lowest through changes of the protection resources allocation. A numerical example is used to illustrate the efficiency of the proposed method. © 2010 IEEE.

关键词： Information fusion

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Single-side-band optical modulation in SCM systems for high-speed optical transmission

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Optoelectronics Letters 2009年第1期5卷 48-50页

作者：李忠义廖同庆 Key Laboratory on Intelligent Computing & Signal Processing of Ministry of Education Anhui University

In order to decrease dispersion penalty and increase the optical bandwidth efficiency,an optical single-side-band modulation(SSBM) scheme in sub-carrier multiplexing(SCM) is *** principle of the SSBM is analytically presented,and a configuration for generating optical SSB signal is proposed using a balanced Mach-Zehnder electro-optic modulator.

关键词： Electrooptical devices

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Subspace selection using semi-supervised harmonic mean of Kullback-Leibler divergences

Subspace selection using semi-supervised harmonic mean of Ku...

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International Conference on Fuzzy Systems and Knowledge Discovery (FSKD)

作者： Si-Bao Chen Hai-Xian Wang Bin Luo Key Lab of Intelligent Computing and Signal Processing of Ministry of Education School of Computer Science and Technology Anhui University Hefei Anhui China Key Lab of Child Development and Learning Science of Ministry of Education Research Center of Learning Sciences South-East University Nanjing Jiangsu China

In many areas of pattern recognition and machine learning, subspace selection is an essential step. Fisher's linear discriminant analysis (LDA) is one of the most well-known linear subspace selection methods. However, LDA suffers from the class separation problem. The projection to a subspace tends to merge close class pairs. A recent result, named maximizing the geometric mean of Kullback-Leibler (KL) divergences of class pairs (MGMD), can significantly reduce the class separation problem. Furthermore, maximizing the harmonic mean of Kullback-Leibler (KL) divergences of class pairs (MHMD) emphasizes smaller divergences more than MGMD, and deals with the class separation problem more effectively. However, in many applications, labeled data are very limited while unlabeled data can be easily obtained. The estimation of divergences of class pairs is unstable using inadequate labeled data. To take advantage of unlabeled data for subspace selection, semi-supervised MHMD (SSMHMD) is proposed using graph Laplacian as normalization. Quasi-Newton method is adopted to solve the optimization problem. Experiments on synthetic data and real image data show the validity of SSMHMD.

关键词： Harmonic analysis Training Laplace equations Manifolds Covariance matrix Machine learning Symmetric matrices

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An Improved Wiener Filtering Algorithm Based On Dynamic Noise Power Spectrum Estimation

An Improved Wiener Filtering Algorithm Based On Dynamic Nois...

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The 4th International Conference on Bioinformatics and Biomedical Engineering(第四届IEEE生物信息与生物医学工程国际会议 iCBBE 2010)

作者： Zhao Lv Xiaopei Wu Mi Li The First Aeronautical College of Air-Force Xinyang Henan Province China The Key Laboratory of In The Key Laboratory of Intelligent Computing & Signal Processing Anhui University Hefei Anhui Prov The First Aeronautical College of Air-Force Xinyang Henan Province China

The problem of enhancing speech degraded by uncorrelated additive noise, when only the noisy speech is available, has been widely studied in the past and it is still an active field of research. Wiener filter, which is the most fundamental approach, has been delineated in different forms and adopted in diversified applications. An improved wiener filtering algorithm is proposed in this study, which utilizes band-partitioning spectral entropy to achieve accurate and robust speech endpoint detection and a dynamic noise power spectrum is estimated for updating a priori SNR. Experimental results reveal that the proposed algorithm can extract the embedded speech segments from utterances containing a variety of background noise successfully.

关键词： Wiener filter Heuristic algorithms Filtering algorithms Spectral analysis Speech enhancement Additive noise Degradation Active noise reduction Entropy Noise robustness

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Matrix representation of spiking neural P systems

Matrix representation of spiking neural P systems

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11th International Conference on Membrane computing, CMC 2010

作者： Zeng, Xiangxiang Adorna, Henry Martínez-Del-Amor, Miguel Ángel Pan, Linqiang Pérez-Jiménez, Mario J. Image Processing and Intelligent Control Key Laboratory of Education Ministry Department of Control Science and Engineering Huazhong University of Science and Technology Wuhan 430074 Hubei China University of the Philippines Diliman 1101 Quezon City Philippines Research Group on Natural Computing Department of Computer Science and Artificial Intelligence University of Sevilla Avda. Reina Mercedes s/n 41012 Sevilla Spain

ISBN: (纸本)3642181228

Spiking neural P systems (SN P systems, for short) are a class of distributed parallel computing devices inspired from the way neurons communicate by means of spikes. In this work, a discrete structure representation of SN P systems with extended rules and without delay is proposed. Specifically, matrices are used to represent SN P systems. In order to represent the computations of SN P systems by matrices, configuration vectors are defined to monitor the number of spikes in each neuron at any given configuration;transition net gain vectors are also introduced to quantify the total amount of spikes consumed and produced after the chosen rules are applied. Nondeterminism of the systems is assured by a set of spiking transition vectors that could be used at any given time during the computation. With such matrix representation, it is quite convenient to determine the next configuration from a given configuration, since it involves only multiplication and addition of matrices after deciding the spiking transition vector. © 2010 Springer-Verlag.

关键词： Vectors

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Shot Transition Detection Based on Locally Linear Embedding

Shot Transition Detection Based on Locally Linear Embedding

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2010 International Conference on Measuring Technology and Mechatronics Automation(ICMTMA 2010)(2010年检测技术与机电自动化国际会议)

作者： MaoSheng Fu DaMing Zhang Min Kong Bin Luo Key Lab of Intelligent Computing & Signal Processing of Ministry of Education Anhui University Hefei230039. P. R. China Department of Computer Science and Technology in West Anhui University Anhui Lu'an 237012. P. R. China

ISBN: (纸本)9781424450015

Detection of shot transitions servers as the preliminary step to video indexing and retrieval. Locally linear embedding (LLE) algorithm fails when it is applied to video with multi-shot. In this paper, we present a novel framework of shot transitions detection. The method involves two processes: First we extract the manifold feature of shot transition using LLE through addition of virtual frames on an enriched set, and then they are classified by *** show that the recognition rate of shot transition is reached over 90％.

关键词： shot transition detection locally linear embedding feature extraction

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