論文

1. In silico screening of triple reaction knockout Escherichia coli strains for overproduction of useful metabolites，Satoshi Ohno, Chikara Furusawa, Hiroshi Shimizu，Journal of Bioscience and Bioengineering，in press，2012年09月，学術論文

2. Systems Metabolic Engineering: The Creation of Microbial Cell Factories by Rational Metabolic Design and Evolution，Chikara Furusawa, Takaaki Horinouchi, Takashi Hirasawa, Hiroshi Shimizu，Advances in Biochemical Engineering/Biotechnology，1-23，2012年06月，解説・総説

3. Investigating the effects of perturbations to pgi and eno gene expression on central carbon metabolism in Escherichia coli using 13C metabolic flux analysis，Yuki Usui, Takashi Hirasawa, Chikara Furusawa, Tomokazu Shirai, Natsuko Yamamoto, Hirotada Mori, Hiroshi Shimizu，Microbial Cell Factories，11(1), 87，2012年06月，学術論文

4. An in silico platform for the design of heterologous pathways in nonnative metabolite production，Sunisa Chatsurachai, Chikara Furusawa, Hiroshi Shimizu，BMC Bioinformatics ，13(1), 93，2012年05月，学術論文

5. Understanding the mechanism of heat stress tolerance caused by high trehalose accumulation in Saccharomyces cerevisiae using DNA microarray，Siraje Arif Mahmud, Takashi Hirasawa, Chikara Furusawa, Katsunori Yoshikawa, Hiroshi Shimizu，Journal of Bioscience and Bioengineering，113(4), 526-528，2012年04月，学術論文

6. Differential importance of trehalose accumulation in Saccharomyces cerevisiae in response to various environmental stresses(出芽酵母における複数の環境ストレスに対するトレハロース蓄積の効果の差異)，Siraje Arif Mahmud、平沢敬、清水浩，生物工学会誌，90(2), 80，2012年02月，解説・総説

7. Evaluating 13C enrichment data of free amino acids for precise metabolic flux analysis.，Eiji Mori, Chikara Furusawa, Shuichi Kajihata, Tomokazu Shirai and Hiroshi Shimizu，Biotechnology journal，in press，2011年09月，学術論文

8. Reconstruction and verification of a genome-scale metabolic model forSynechocystis sp. PCC6803，Katsunori Yoshikawa, Yuta Kojima, TsubasaNakajima, Chikara Furusawa, Takashi Hirasawa, Hiroshi Shimizu，Applied Microbiology Biotechnology，2011年08月，学術論文

9. Transcriptome analysis of parallel-evolved Escherichia coli strains under ethanol stress，Takaaki Horinouchi, Kuniyasu Tamaoka, Chikara Furusawa, Naoaki Ono, Shingo Suzuki, Takashi Hirasawa, Tetsuya Yomo, and Hiroshi Shimizu，BMC Genomics，Vol. 11, No. 1, p. 579，2010年11月，学術論文

10. Saccharomyces cerevisiae and DNA microarray analyses: what did we learn from it for a better understanding and exploitation of yeast biotechnology?，Takashi Hirasawa, Chikara Furusawa, Hiroshi Shimizu，Applied Microbiology Biotechnology，87(2), 391-400，2010年04月，学術論文

11. Requirement of de novo synthesis of the OdhI protein in penicillin-induced glutamate production by Corynebacterium glutamicum，Jongpill Kim, Hirohisa Fukuda, Takashi Hirasawa, Keisuke Nagahisa, Kazuo Nagai, Masaaki Wachi, Hiroshi Shimizu，Applied Microbiology and Biotechnology，Vol. 86, No. 3, p. 911-920，2009年12月，学術論文

12. Development and Experimental Verification of a Genome-Scale Metabolic Model for Corynebacterium glutamicum，Yohei Shinfuku, Natee Sorpitiporn, Masahiro Sono, Chikara Furusawa, Takashi Hirasawa and Hiroshi Shimizu，Microbial Cell Factories，vol. 8, 43，2009年08月，学術論文

13. Analysis of metabolic network based on conservation of molecular structure，Tomoharu Hogiri, Chikara Furusawa, Yohei Shinfuku, Naoaki Ono, Hiroshi Shimizu，BioSystems，Vol. 95, Issue 3, PP. 175-178，2009年03月，学術論文

14. Model-based analysis of non-specific binding for background correction of high-density oligonucleotide microarrays.，Furusawa, C., Ono, N., Suzuki, S., Agata, T., Shimizu, H., and Yomo, T.，Bioinformatics，25: 36-41，2009年01月，学術論文

15. Effect of trehalose accumulation on response to saline stress in Saccharomyces cerevisiae，Siraje Arif Mahmud, Keisuke Nagahisa, Takashi Hirasawa, Katsunori Yoshikawa, Kengo Ashitani, Hiroshi Shimizu，Yeast，Vol.26, No.1, p.17-30，2008年10月，学術論文

16. Comprehensive phenotypic analysis for identification of genes affecting growth under ethanol stress in Saccharomyces cerevisiae，Katsunori Yoshikawa, Tadamasa Tanaka, Chikara Furusawa, Keisuke Nagahisa, Takashi Hirasawa, Hiroshi Shimizu，FEMS Yeast Research，Vol. 9, Issue 1, pp. 32-44，2008年10月，学術論文

17. Effects of odhA overexpression and odhA antisense RNA expression on Tween-40-triggered glutamate production by Corynebacterium glutamicum，Jongpill Kim, Takashi Hirasawa, Yoshiyasu Sato, Keisuke Nagahisa, Chikara Furusawa, Hiroshi Shimizu，Applied Microbiology and Biotechnology，Vol. 81, No.6, pp.1097-1106，2008年10月，学術論文

18. バイオ情報を基盤とする有用生物創製の時代を拓く代謝情報工学，清水浩、古澤力、平沢敬，バイオサイエンスとインダストリー，Vol. 66, No. 8, 426-432，2008年08月，解説・総説

19. An improved physico-chemical model of hybridization on high-density oligonucleotide microarrays.，Ono, N., Suzuki, S., Furusawa, C., Agata, T., Kashiwagi, A., Shimizu, H., and Yomo, T.，Bioinformatics，24 (10): 1278-1285，2008年05月，学術論文

20. Dynamic change in promoter activation in lysine biosynthesis of Escherichia coli cell，Jianhong Ou, Tadashi Yamada, Keisuke Nagahisa, Takashi Hirasawa, Chikara Furusawa, Tetsuya Yomo, Hiroshi Shimizu,，Molecular BioSystems，Vol. 4, 128-134，2008年02月，学術論文