研究者詳細 - 倉田　博之

論文 - 倉田　博之

分割表示251 件中 221 - 240 件目／全件表示 >>

BIOCAD Project for Synthesis and Analysis of Gene Regulatory Networks 査読有り

Kurata Hiroyuki, Sumida Yoshiyuki, Tanaka Shin, Masaki Kouichi, Tanaka Takayuki, Urago Yuki, Ohashi Ken

Ｇｅｎｏｍｅ　Ｉｎｆｏｒｍａｔｉｃｓ ( 日本バイオインフォマティクス学会 ) 13 467 - 468 2002年01月

Building Common Patterns for Transcription Factor Binding Sites of <I>Escherichia coli</I> 査読有り

Li Weijiang, Kurata Hiroyuki

Ｇｅｎｏｍｅ　Ｉｎｆｏｒｍａｔｉｃｓ ( 日本バイオインフォマティクス学会 ) 13 301 - 302 2002年01月

Robustness analysis of the heat shock response in E. coli 査読有り

El-Samad H., Khammash M., Kurata H., Doyle J.

Proceedings of the American Control Conference 3 1742 - 1747 2002年01月

担当区分：責任著者記述言語：英語掲載種別：研究論文（学術雑誌）

The bacterial heat shock response refers to the mechanism by which bacteria react to a sudden increase in the ambient temperature of growth. The consequences of such an unmediated temperature increase at the cellular level is the unfolding, misfolding, or aggregation of cell proteins, which threatens the life of the cell. Cells respond to the heat stress by initiating the production of heat-shock proteins whose function is to refold denatured proteins into their native states. The heat shock response, through the elevated synthesis of molecular chaperones and proteases, enables the repair of protein damage and the degradation of aggregated proteins. In a previous work [1], we have devised a dynamic model for the heat shock response in E. coli. In the present paper, we provide a thorough discussion of the dynamical nature of this model. We use sensitivity analysis and simulation tools to illustrate the remarkable efficiency, robustness, and stability of the heat shock response system.

DOI： 10.1109/ACC.2002.1023817

Scopus

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BIOCAD project for constructing a biological system in silico

T.Adachi,N. Matoba,H. Kurata

Genome Informatics Series 12 284 - 285 2001年12月

Simulation and system analysis of gene regulatory networks using the two-phase partition method

H. Kurata,T. Inoue,Y. Sumida,S. Tanaka,T. Ohashi

Genome Informatics Series 286 - 287 2001年12月

Feedback regulation of the heat shock response in E. coli 査読有り

H. Kurata,H. El-Samad,T.-M. Yi,M. Khammash,J. C. Doyle

Proceedings of the 40th IEEE Conference on Decision and Control 837 - 842 2001年12月

A simple and rapid system for the quantitation of RNA interference in plant cultured cells 査読有り

Akashi H,Miyagishi M,Kurata H,Nagata T,Taira K.

Nucleic Acids Res. Suppl. ( 1 ) 235 - 236 2001年01月

BIOCAD Project for Constructing a Biological System <I>in Silico</I> 査読有り

Adachi Tadashi, Matoba Nana, Kurata Hiroyuki

Ｇｅｎｏｍｅ　Ｉｎｆｏｒｍａｔｉｃｓ ( 日本バイオインフォマティクス学会 ) 12 284 - 285 2001年01月

A simple and rapid system for the quantitation of RNA interference in plant cultured cells. 査読有り

Akashi H., Miyagishi M., Kurata H., Nagata T., Taira K.

Nucleic acids research. Supplement (2001) ( 1 ) 235 - 236 2001年01月

担当区分：責任著者記述言語：英語掲載種別：研究論文（学術雑誌）

The phenomenon known as RNA interference (RNAi) by double-stranded RNA (dsRNA) that was reported recently in the nematode Caenorhabditis elegans has been shown to operate by a mechanism that is widely conserved among species including plant cells. No quantitative analysis of the effects of RNAi on the expression of specific genes in plant cultured cells has been reported. An RNAi effect was observed 24 h after the introduction of dsRNA expression plasmids into tobacco BY-2 cells by electroporation. The simple system for suppression of specific genes in plant cells should be useful in attempts to elucidate the roles of individual genes in plant cells.

DOI： 10.1093/nass/1.1.235

Scopus

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Glucocorticoid-induced expression of a foreign gene by the GVG system in transformed tobacco BY-2 cells 査読有り

Nara Y., Kurata H., Seki M., Taira K.

Biochemical Engineering Journal 6 ( 3 ) 185 - 191 2000年12月

担当区分：責任著者掲載種別：研究論文（学術雑誌）

A glucocorticoid-induced target gene expression system was used to control the expression of the uidA gene, whose product was β-glucuronidase (GUS), in tobacco BY-2 cell suspension culture. This targeting system showed quick, sensitive, and reversible response to dexamethazone (DEX), an artificial glucocorticoid hormone. Addition of DEX greatly and quickly enhanced uidA gene expression, whose level was as high as that under the control of the CaMV 35S promoter whereas in the absence of DEX, the GUS specific activity was suppressed to be as low as that of nontransformed BY-2 cells. The dilution of DEX decreased GUS specific activity showing that the concentration of DEX plays a major role in controlling the expression level of the target. The use of the glucocorticoid-induced system in plant cell suspension culture was demonstrated to precisely control target gene expression. (C) 2000 Elsevier Science S.A.

DOI： 10.1016/S1369-703X(00)00087-5

Scopus

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MAXIZYMEs: Allosterically controllable ribozymes with biosensor functions 査読有り

Kurata H., Miyagishi M., Kuwabara T., Warashina M., Taira K.

Journal of Biochemistry and Molecular Biology 33 ( 5 ) 359 - 365 2000年09月

担当区分：責任著者掲載種別：研究論文（学術雑誌）

Ribozymes are catalytic RNAs that can cleave RNAs at specific sites, thus they have been employed to degrade a target mRNA in vivo. Development of allosterically controllable ribozymes is of great current interest, but it remained difficult to furnish such functions to ribozymes in cultured cells or in animals. Recently, we designed allosterically controllable ribozymes termed maxizymes, which have sensor arms that recognize target mRNA sequences and, in the presence of such target sequences only, they form a cavity that can capture catalytically indispensable Mg2+ ions, cleaving the target The maxizyme was applied to therapy for chronic myelogenous leukemia (CML). It cleaved specifically the chimeric BCR-ABL mRNA, which caused CML, without damaging the normal ABL or BCR mRNA in mammalian cells and also in mice, providing the first successful example for allosteric control of the activity of artificial ribozymes in vivo.

Scopus

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Intermittent light irradiation with second- or hour-scale periods controls anthocyanin production by strawberry cells 査読有り

Kurata H., Mochizuki A., Okuda N., Seki M., Furusaki S.

Enzyme and Microbial Technology 26 ( 8 ) 621 - 629 2000年05月

担当区分：責任著者掲載種別：研究論文（学術雑誌）

Anthocyanin production by strawberry cells depends not only on light intensity but also on the light/dark cycle operation with hour- or second- scale periods. These findings are useful for designing and operating photobioreactors for enhanced anthocyanin production. Intermittent illumination with a second-scale period produces the same amount of anthocyanin as continuous light, suggesting that the light intensity distribution within a photobioreactor does not cause suppressed production. In the hour-scale cycle, continuous light operation enhanced anthocyanin production more than the light/dark cycle process. (C) 2000 Elsevier Science Inc.

DOI： 10.1016/S0141-0229(00)00143-5

Scopus

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Intermittent light irradiation with second- or hour- scale periods controls anthocyanin production by strawberry cells 査読有り

Kurata H.,Mochizuki A.,Okuda N.,Seki M.,Furusaki S.

Enzyme Microb. Technol. 26 ( # ) 621 - 629 2000年04月

Grucocorticoid-induced expression of a foreign gene by the GVG system in transformed tobacco BY-2 査読有り

Nara Y.,Kurata H.,Seki M,Taira K.

Biochem. Eng. J. 6 ( # ) 185 - 191 2000年04月

Two-phase partition method for simulating a biological system at an extremely high speed 査読有り

Kurata H.,Taira K.

Genome Informatics 11 ( # ) 185195 - 185195 2000年04月

Complexity in Regulation Generates Robustness in Bacterial Molecular Networks

Kurata H.,Taira K.

Proceedings of the First International Conference on Systems Biology 1 ( # ) 167 - 172 2000年04月

Evolution of Ammonia Assimilation System in E. coli. ,17-24.

Kurata H.,Taira K.

Technical Report of IEICE AI2000-12 ( # ) 17 - 24 2000年04月

Two-Phase Partition Method for Simulating a Biological System at an Extremely High Speed 査読有り

Kurata Hiroyuki, Taira Kazunari

Ｇｅｎｏｍｅ　Ｉｎｆｏｒｍａｔｉｃｓ ( 日本バイオインフォマティクス学会 ) 11 185 - 195 2000年01月

担当区分：責任著者記述言語：英語掲載種別：研究論文（学術雑誌）

To accelerate the calculation speed for simulating a biological system, we proposed a novel simulation method, the two-phase partition method, which calculated molecular processes at a higher speed than any other proposed method. This method divides a biological system, which can be described by chemical reaction equations, into two-phases: the binding and reaction phases. We demonstrated the capability of the two-phase partition method to simulate a complex biological system at an extremely high speed and clarified the accuracy of the simulation. The two-phase partition method is very useful for simulating complex interactions among proteins and DNAs.

DOI： 10.11234/gi1990.11.185

CiNii Article

その他リンク： https://ci.nii.ac.jp/naid/130003996847

Two-phase partition method for simulating a biological system at an extremely high speed. 査読有り

Kurata H., Taira K.

Genome informatics. Workshop on Genome Informatics 11 185 - 195 2000年01月

担当区分：責任著者記述言語：英語掲載種別：研究論文（学術雑誌）

Scopus

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Mathematical model analyzes light-controlled expression of the CHS promoter in BY-2 cells 査読有り

Kurata H., Kaizuka Y., Seki M., Furusaki S.

Biochemical Engineering Journal 4 ( 1 ) 65 - 72 1999年09月

担当区分：責任著者掲載種別：研究論文（学術雑誌）

The β-glucuronidase (GUS) reporter gene was fused to the 2.0-kb upstream region of Arabidopsis thaliana chalcone synthase (CHS) gene and transferred into BY-2 cells. CHS promoter expression showed a quick response to light/darkness and its expression level was more than that by the Cauliflower Mosaic Virus (CaMV) 35S promoter [1]. In this study, a kinetic model was developed for describing light-enhanced expression of the CHS promoter by tobacco BY-2 cells. This model simulates the behavior of CHS promoter expression by two factors: the specific light absorption rate (light intensity) and the illumination time. The dependency of GUS synthesis on light intensity is well characterized by using the Monod equation. The dependency on the illumination time is calculated by using a saturation time constant of illumination. The mathematical model demonstrated that the conditioned medium or past illumination changed the kinetics of CHS promoter expression.

DOI： 10.1016/S1369-703X(99)00034-0

Scopus

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