IJITCS Vol. 3, No. 2, Mar. 2011
Cover page and Table of Contents: PDF (size: 130KB)
In this paper, we consider the problem of protein classification, which is a important and hot topic in bioinformatics. We propose a novel kernel based on the KSpectrum Kernel by incorporating physico-chemical and biological properties of amino acids as well as the motif information for the captured protein classification problem. Similarity matrix is constructed based on an AAindex2 substitution matrix which measures the amino acid pair distance. Together with the motif content posing importance on the protein sequences, a new kernel is then constructed. We adopt the Eigen-matrix translation techniques for improving the classification accuracy. Experimental results indicate that the string-based kernel in conjunction with SVM classifier performs significantly better than the traditional spectrum kernel method. Furthermore, numerical examples also confirm the use of the Eigenmatrix translation techniques as general strategy.[...] Read more.
Automatic aerial image interpretation is one of new rising high-tech application fields, and it’s proverbially applied in the military domain. Based on human visual attention mechanism and texture visual perception, this paper proposes a new approach for man-made object detection and marking by extracting texture and geometry structure features. After clustering the texture feature to realize effective image segmentation, geometry structure feature is obtained to achieve final detection and marking. Thus a man-made object detection methodology is designed, by which typical man-made objects in complex natural background, including airplanes, tanks and vehicles can be detected. The experiments sustain that the proposed method is effective and rational.[...] Read more.
The popular MLE (Maximum Likelihood Estimation) is a generative approach for acoustic modeling and ignores the information of other phones during training stage. Therefore, the MLE-trained acoustic models are confusable and unable to distinguish confusing phones well. This paper introduces discriminative measures of minimum phone/word error (MPE/MWE) to refine acoustic models to deal with the problem. Experiments on the database of 498 people’s live Putonghua test indicate that: 1) Refined acoustic models are more distinguishable than conventional MLE ones; 2) Even though training and test are mismatch, they still perform significantly better than MLE ones in pronunciation proficiency evaluation. The final performance has approximately 4.5% relative improvement.[...] Read more.
A new technique for conducting site-directed mutagenesis was developed. This method allows the color selection of mutants through the simultaneous activation or deactivation of the α-peptide of ß-galactosidase. The method can efficiently create mutations at multiple sites simultaneously and can be used to perform multiple rounds of mutation on the same construct. In this paper, in order to develop an efficient site-directed mutagenesis method in vivo, the tests were tested by the following methods. The methods that the fragment knock-out ompR gene was constructed through overlapping PCR, digested by Notand SalⅠⅠ, ligated to plasmid pKOV were applied. The recombination plasmid was transformed into Escherichia coli WMC-001 strain, integrated into the genomic DNA through two step homologous recombination. The Escherichia coli WMC-001/ompR- mutant was obtained due to gene replacement. The fragment of the mutant ompR gene was amplified through overlapping PCR, cloned into pKOV vector. The recombinant plasmid was introduced into Escherichia coli WMC-001/ompR- mutant. The Escherichia coli WMC-001/ompR mutant was also obtained due to gene replacement. Results: The site-directed mutagenesis has been successfully constructed in the ompR gene by sequencing. Conclusion: The method is effective for construction of gene site-directed mutagenesis in vivo.[...] Read more.
This paper analyzes the characteristics of power system on electric propulsion ship. The mathematical model and simulation model of diesel engine PID speed control system and synchronous generator’s AVR+PSS excitation control system was built. At last the simulation test of suddenly add load was did in MATLAB/simulink environment. The result shows that the speed control and excitation control system has well stability, rapidity and some robustness.[...] Read more.
In this paper, we propose two new iterative SAOR methods to solve the linear complementarity problem. Some sufficient conditions for the convergence of two new iterative methods are presented, when the system matrix M is an M-matrix. Moreover, when M is an L-matrix, we discuss the monotone convergence of the new methods. And in the numerical experiments we report some computational results with the two proposed SAOR formats.[...] Read more.
In the paper, an engineering model for the im-pact breakup of the space target is studied based on the thin plate. The average fragment size model for the impact breakup of the thin plate is established depending on the strain rate, according as Poisson statistic fragments are discrete and distribution model is figured out. On the foundation of the constitution analysis for the target and projectile, the target equivalent model based on the thin plate is established, and projectile equivalent model is also given. The length and velocity degraded model are set up against the cylindrical projectile. The simulation case is analyzed and the result indicates that the paper model is effective, flexible and has important engineering reference value.[...] Read more.
Protein 3D structure is one of the key factors in recognizing gene functions. The availability of protein structure data in Protein Data Bank (PDB) enables us to conduct gene function analysis. However, the molecules in the PDB, whose structures have been determined, are always not corresponding to a unique gene. That is to say, the mapping from gene to PDB is not one-to-one. Thus this uncertain property complicates the analysis and increases the difficulty of gene function analysis. In this paper, we attempt to tackle this challenging issue and we study the problem of predicting gene function from protein structures based on the gene-PDB mapping. We first obtain the gene-PDB mapping, which is important in representing a gene by the structure set of all its corresponding PDB molecules. We then define a new gene-gene similarity measurement based on the structure similarity between PDB molecules. We further show that this new measurement matches with gene functional similarity nicely. This means that the measurement we introduced here can be useful for gene function prediction. Numerical examples are given to demonstrate our claim.[...] Read more.