We have newly constructed an in silico model of fermentative metabolism for Lactococcus lactis in order to analyze the characteristics of metabolite flux for dynamic network. A rigorous mathematical model for metabolic flux has been developed and simulation researches have been performed by using GEPASI program. In this simulation task, we were able to predict the whole flux distribution trend for lactate metabolism and analyze the flux ratio on the pyruvate branch point by using metabolic flux analysis(MFA). And we have studied flux control coefficients of key reaction steps in the model by using metabolic control analysis(MCA). The role of pyruvate branch seems to be essential for the secretion of lactate and other organic byproducts. Then we have made an effort to elucidate its metabolic regulation characteristics and key reaction steps, and find an optimal condition for the production of lactate.

Application of microarray technologies which monitor simultaneously the expression pattern of thousands of individual genes in different biological systems results in a tremendous increase of the amount of available gene expression data and have provided new insights into gene expression during drug development, within disease processes, and across species. There is a great need of data mining methods allowing straightforward interpretation, visualization and analysis of the relevant information contained in gene expression profiles. Specially, classifying biological samples into known classes or phenotypes is an important practical application for microarray gene expression profiles. Gene expression profiles obtained from tissue samples of patients thus allowcancer classification. In this research, molecular classification of microarray gene expression data is applied for multi-class cancer using computational biology such gene selection, principal component analysis and fuzzy clustering. The proposed method was applied to microarray data from leukemia patients; specifically, it was used to interpret the gene expression pattern and analyze the leukemia subtype whose expression profiles correlated with four cases of acute leukemia gene expression. A basic understanding of the microarray data analysis is also introduced.

The computational modeling and simulation of complex biological systems are indispensable for new knowledge extraction from huge experimental data and ever growing vast amount of information in systems biology. Moreover, gathering and sharing of the existing information and newly-generated knowledge can speed up this research process. In this regard, several modeling projects have been undertaken for quantitatively analyzing the biological systems via the internet. They include Virtual Cell, JWS and OBIYagns. We also develop an integrated web-based environment, which facilitate investigation of dynamic behavior of cellular systems.

FBA(flux balance analysis) with Boolean rules for representing regulatory events has correctly predicted cellular behaviors, such as optimal flux distribution, maximal growth rate, metabolic by-product, and substrate concentration changes, with various environmental conditions. However, until now, since FBA has not taken into account a hierarchical regulatory network, it has limited the representation of the whole transcriptional regulation mechanism and interactions between specific regulatory proteins and genes. In this paper, in order to solve these problems, we describe the construction of hierarchical regulatory network with defined symbols and the introduction of a weight for representing interactions between symbols. Finally, the whole cellular behaviors with time were simulated through the linkage of a hierarchical regulatory network module and dynamic simulation module including FBA. The central metabolic network of E. coli was chosen as the basic model to identify our suggested modeling method.

The DNA and protein data of diverse species have been daily discovered and deposited in the public archives according to each established format. Database systems in the public archives provide not only an easy-to-use, flexible interface to the public, but also in silico analysis tools of unidentified sequence data. Of such in silico analysis tools, multiple sequence alignment [1] methods relying on pairwise alignment and Smith-Waterman algorithm [2] enable us to identify unknown DNA, protein sequences or phylogenetic relation among several species. However, in the existing multiple alignment method as the number of sequences increases, the runtime increases exponentially. In order to remedy this problem, we adopted a parallel processing suffix tree algorithm that is able to search for common subsequences at one time without pairwise alignment. Also, the cross-matching subsequences triggering inexact-matching among the searched common subsequences might be produced. So, the cross-matching masking process was suggested in this paper. To identify the function of the clusters generated by suffix tree clustering, BLAST was combined with a clustering tool. Our clustering and annotating tool is summarized as the following steps: (1) construction of suffix tree; (2) masking of cross-matching pairs; (3) clustering of gene sequences and (4) annotating gene clusters by BLAST search. The system was successfully evaluated with 22 gene sequences in the pyrubate pathway of bacteria, clustering 7 clusters and finding out representative common subsequences of each cluster

A yeast strain utilizing styrene epoxide as a sole carbon and energy source was isolated from soil samples for the production of enantiopure of styrene epoxide by kinetic resolution. The strain, identified as a Rhodosporidium toruloides SJ-4, expressed an epoxide hydrolase which preferentially converted (R)-styrene epoxide into the corresponding diol. A maximum activity of 135 U/L was observed when biomass (dry cell mass) reached 6.7 g/L at 21 h of batch culture. Under the partially optimized reaction conditions ($35^{\circ}C$ and pH 8.0), the optically pure (S)-styrene epoxide was obtained with the yield of 21% when the initial substrate concentration was 100 mM. The reaction was completed at 9 h.

This paper proposes a new method for LQR controller design. It is unsystematic and difficult to design an LQR controller by trial and error. The proposed method is capable of systematically calculating weighting matrices for desired pole(s) by the pole's moving-range in S-plane and the relational equation between closed-loop pole(s) and weighting matrices. This will provide much-needed functionality to apply LQR controller. The example shows the feasibility of the proposed method.

This paper presents that a transient response can be characterized by certain parameters which are correlated to characteristic polynomial coefficients. These are characteristic ratios and characteristic pulsatances by P. Naslin [4]. We have developed an approach to control directly the transient response. Firstly, speed of the response can be controlled by reconstruction form via multipliable characteristic pulsatances. Secondly, overshoot is controlled by reconstruction form via multipliable characteristic ratios. These formulas can be independently characterized by the system overshoot and the response time to a step input.

This paper presents a fault diagnosis(detection and isolation) approach for the Ammunition Transport Automation system(ATAS). Due to limited time and information available during its cyclic operation, the on-line fault detection algorithm consists of sequential test logics referring to the normal states, which can be considered as a kind of expert system. If a failure were detected, the off-line isolation algorithm finds the fault location through trained ART2 neural network. By the results of simulations and some on-line field test, it has been shown that the presented approach is effective enough and applicable to related automation systems.

In this paper, experimental studies of balancing a pendulum mounted on a wheeled drive mobile robot and its position control are presented. Main PID controllers are compensated by a neural network. Neural network learning algorithm is embedded on a DSP board and neural network controls the angle of the pendulum and the position of the mobile robot along with PID controllers. Uncertainties in system dynamics are compensated by a neural network in on-line fashion. Experimental results show that the performance of balancing of the pendulum and position tracking of the mobile robot is good.