Hiroshi Honjo, Kenshiro Iwasaki, Yuki Soma, Keigo Tsuruno, Hiroyuki Hamada, Taizo Hanai: Synthetic microbial consortium with specific roles designated by genetic circuits for cooperative chemical production., Metabolic Engineering, 55,268-275.
Yasutaka Hirokawa, Takeshi Kubo, Yuki Soma, Fumiko Saruta and Taizo Hanai: Enhancement of acetyl-CoA flux for photosynthetic chemical production by pyruvate dehydrogenase complex overexpression in Synechococcus elongatus PCC 7942., Metabolic Engineering, 57,23-30.
Naruhiko Sawa, Tsuneyuki Tatsuke, Atsushi Ogawa, Yasutaka Hirokawa, Takashi Osanai, Taizo Hanai: Modification of carbon metabolism in Synechococcus elongatus PCC 7942 by cyanophage-derived sigma factors for bioproduction improvement, Journal of Bioscience and Bioengineering, 127, 256-264 (2019).
2018
Yasutaka Hirokawa, Yu Kanesaki, Sayuri Arai, Kayoko Hayashihara, Akio Murakami, Kazunori Shimizu, Hiroyuki Honda, Hirofumi Yoshikawa, Taizo Hanai: Mutations responsible for alcohol tolerance in the mutant of Synechococcus elongatus PCC 7942 (SY1043) obtained by single-cell screening system., Journal of Bioscience and Bioengineering, 125, 572-577 (2018).
2017
Yasutaka Hirokawa, Shingo Matsuo, Hiroyuki Hamada, Fumio Matsuda, Taizo Hanai: Metabolic engineering of Synechococcus elongatus PCC 7942 for improvement of 1,3-propanediol and glycerol production based on in silico simulation of metabolic flux distribution, Microbial Cell Factories, 16, 212-224 (2017).
Yasutaka Hirokawa, Ryota Goto, Yoshitaka Umetani, Taizo Hanai: Construction of a novel D-lactate producing pathway from dihydroxyacetone phosphate of the Calvin cycle in cyanobacterium, Synechococcus elongates PCC 7942, Journal of Bioscience and Bioengineering, 124, 54-61 (2017).
Yuki Soma, Yuri Fujiwara, Takuya Nakagawa, Keigo Tsuruno, Taizo Hanai: Reconstruction of a metabolic regulatory network in Escherichia coli for purposeful switching from cell growth mode to production mode in direct GABA fermentation from glucose, Metabolic Engineering, 43, 54-63 (2017).
Yuki Soma, Taiki Yamaji, Fumio Matsuda, Taizo Hanai: Synthetic metabolic bypass for a metabolic toggle switch enhances acetyl-CoA supply for isopropanol production by Escherichia coli, Journal of Bioscience and Bioengineering, 123, 625-633 (2017).
Yasutaka Hirokawa, Yuki Maki, Taizo Hanai: Improvement of 1,3-propanediol production using an engineered cyanobacterium, Synechococcus elongatus by optimization of the gene expression level of a synthetic metabolic pathway and production conditions, Metabolic Engineering, 39, 192-199 (2017).
Yasutaka Hirokawa, Yudai Dempo, Eiichiro Fukusaki, Taizo Hanai: Metabolic engineering for isopropanol production by an engineered cyanobacterium, Synechococcus elongatus PCC 7942, under photosynthetic conditions, Journal of Bioscience and Bioengineering, 123, 39-45 (2017).
2016
Yasutaka Hirokawa, Yuki Maki, Tsuneyuki Tatsuke, Taizo Hanai: Cyanobacterial production of 1,3-propanediol directly from carbon dioxide using a synthetic metabolic pathway, Metabolic Engineering, 34, 97-103 (2016).
Sayuri Arai, Mina Okochi, Kazunori Shimizu, Taizo Hanai, Hiroyuki Honda: A single cell culture system using lectin-conjugated magnetite nanoparticles and magnetic force to screen mutant cyanobacteria., Biotechnology and Bioengineering, 113, 112-119(2016).
2015
Keigo Tsuruno, Hiroshi Honjo, Taizo Hanai: Enhancement of 3-hydroxypropionic acid production from glycerol by using a metabolic toggle switch., Microbial Cell Factories, 14, 155-169(2015).
Yuki Soma, Taizo Hanai: Self-induced metabolic state switching by a tunable cell density sensor for microbial isopropanol production., Metabolic Engineering, 30, 7-15(2015).
Hiroshi Honjo, Keigo Tsuruno, Tsuneyuki Tatsuke, Masaki Sato, Taizo Hanai: Dual synthetic pathway for 3-hydroxypropionic acid production in engineered Escherichia coli., Journal of Bioscience and Bioengineering, 120, 199-204 (2015).
Yasutaka Hirokawa, Iwane Suzuki, Taizo Hanai: Optimization of isopropanol production by engineered cyanobacteria with a synthetic metabolic pathway, Journal of Bioscience and Bioengineering, 119, 585-590 (2015).
2014
Yuki Soma, Keigo Tsuruno, Atsushi Yokota, Taizo Hanai: Metabolic flux redirection from a central metabolic pathway toward a synthetic pathway using a metabolic toggle switch, Metabolic Engineering, 23, 175-184(2014).
Sayuri Arai, Mina Okochi, Taizo Hanai, Hiroyuki Honda: Micro-compartmentalized cultivation of cyanobacteria for mutant screening using glass slides with highly water-repellent mark, Biotechnology Reports, 4, 151-155(2014).
2013
Tamami Kusakabe, Tsuneyuki Tatsuke, Keigo Tsuruno, Yasutaka Hirokawa, Shota Atsumi, James C. Liao, Taizo Hanai: Engineering synthetic pathway in cyanobacteria for isopropanol production directly from carbon dioxide and light, Metabolic Engineering, 20, 101-108 (2013).
2012
Yuki Soma, Kentaro Inokuma, Tsutomu Tanaka, Chiaki Ogino, Akihiko Kondo, Masahiro Okamoto, Taizo Hanai: Direct isopropanol production from cellobiose by engineered Escherichia coli using a synthetic pathway and a cell surface display system, Journal of Bioscience and Bioengineering, 114, 80-85 (2012).
2011
Yuki Kuriya, Shigemitsu Tanaka, Genta Kobayashi, Taizo Hanai and Masahiro Okamoto: Development of an Analytical Pipeline for Optimizing Substrate Feeding and Eliminating Metabolic Bottlenecks, Chem-Bio Informatics, 11, 1-23 (2011).
2010
Ieong Wong, Shota Atsumi, Wei-Chih Huang, Tung-Yun Wu, Taizo Hanai, Miu-Ling Lam, Ping Tang, Jian Yang, James C. Liao and Chih-Ming Ho: An agar gel membrane-PDMS hybrid microfluidic device for long term single cell dynamic study, Lab Chip, 10, 2710-2719 (2010).
Kentaro Inokuma, Masahiro Okamoto, Taizo Hanai: Improvement of isopropanol production by metabolically engineered Escherichia coli using gas stripping, Journal of Bioscience and Bioengineering, 110, 696-701 (2010).
2009
Hiroyuki Hamada, Yoshihiko Tashima, Yu Kisaka, Kazunari Iwamoto, Taizo Hanai, Yukihiro Eguchi, Masahiro Okamoto: Sophisticated Framework between Cell Cycle Arrest and Apoptosis Induction Based on p53 Dynamics, PLoS ONE, 4, e4795(2009).
2008
Shota Atsumi, Taizo Hanai, James C. Liao: Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels, Nature, 451, 7174, 86-89(2008).
Shota Atsumi, Anthony F. Cann, Michael R. Connor, Claire R. Shen, Kevin M. Smith, Mark P. Brynildsen, Katherine J.Y. Chou, Taizo Hanai, James C. Liao: Metabolic engineering of Escherichia coli for 1-butanol production, Metabolic Engineering, 10, 6, 305-311(2008).
Hideaki Shinto, Yukihiro Tashiro, Genta Kobayashi, Tatsuya Sekiguchi, Taizo Hanai, Yuki Kuriya, Masahiro Okamoto, Kenji Sonomoto: Kinetic study of substrate dependency for higher butanol production in acetone-butanol-ethanol fermentation, Process Biochemistry, in press.
Yoshihiko Tashima, Hiroyuki Hamada, Masahiro Okamoto, Taizo Hanai: Prediction of Key Factor for Control of G1/S Phase in Mammalian Cell Cycle by using System Analysis, Journal of Bioscience and Bioengineering, accepted.
Chinatsu Arima, Kazumi Hakamada, Masahiro Okamoto, and Taizo Hanai: Modified Fuzzy Gap statistic for estimating the preferable number of clusters in fuzzy k-means clustering, Journal of Bioscience and Bioengineering, 105, 3, 273-281 (2008).
Hiroyuki Hamada
2019
Tatsuya Sekiguchi, Hiroyuki Hamada, Masahiro Okamoto, Inference of General Mass Action-based State Equations for Oscillatory Biochemical Reaction Systems Using k-step Genetic Programming, Applied Mathematics, 10, 627-645, 2019.08.
2018
Ryoichi Sakiyama, Hiroyuki Hamada, Brandon Blau, Nora Freyer, Katrin Zeilinger, Frank Schubert, Toshio Miki, Evaluation of the mass transfer rate using computer simulation in a three-dimensional interwoven hollow fiber-type bioartificial liver, Biotechnology Letters, https://doi.org/10.1007/s10529-018-2609-1, pp.1-12, 2018.09.
2017
Yasutaka Hirokawa, Shingo Matsuo, Hiroyuki Hamada, Fumio Matsuda, Taizo Hanai, Metabolic engineering of Synechococcus elongatus PCC 7942 for improvement of 1,3-propanediol and glycerol production based on in silico simulation of metabolic flux distribution, Microbial Cell Factories, https://doi.org/10.1186/s12934-017-0824-4, 16(1), 212, pp.1-12, 2017.11.
2016
Yohei Motomura, Hiroyuki Hamada, Masahiro Okamoto, An Effective Numerical Calculation Method for Multi Time-Scale Mathematical Models in Systems Biology, Applied Mathematics, DOI:10.4236/am.2016.717178, 7, 2241-2268, 2016.
Kazunari Iwamoto, Hiroyuki Hamada, Yukihiro Eguchi, Masahiro Okamoto, Stochasticity of Intranuclear Biochemical Reaction Processes Controls the Final Decision of Cell Fate Associated with DNA Damage, PLOS ONE, DOI:10.1371/journal.pone.0101333, 9, e101333, 2014.
2013
Hiroyuki Hamada, Fumimasa Nomura, Tomoyuki Kaneko, Kenji Yasuda, and Masahiro Okamoto, Exploring the implicit interlayer regulatory mechanism between cells and tissue: Stochastic mathematical analyses of the spontaneous ordering in beating synchronization, Biosystems, DOI:10.1016/j.biosystems.2013.02.007, 111, 208-215, 2013.
2011
Kazunari Iwamoto, Hiroyuki Hamada and Masahiro Okamoto, Mechanism of cell cycle disruption by multiple p53 pulses, Genome Informatics, 25, 12-24, 2011.
Kazunari Iwamoto, Hiroyuki Hamada, Yukihiro Eguchi and Masahiro Okamoto, Mathematical modeling of cell cycle regulation in response to DNA damage: exploring mechanisms of cell-fate determination, Biosystems, 103, 384-391, 2011.
Koji Ishii, Hiroyuki Hamada, Masahiro Okamoto, Mathematical modeling for spatiotemporal development of leaf primordium, The proceedings of the International Conference on Complex, Intelligent and Software Intensive Systems, 2, 813-818, 2009.
Koji Ishii, Hiroyuki Hamada, Masahiro Okamoto, Mathematical modeling for morphogenesis of leaf with employing cell automata and reaction-diffusion equation, The proceedings of the Fourteenth International Symposium on Artificial Life and Robotics, 14, 456-459, 2009.
2008
Kazunari Iwamoto, Yoshihiko Tashima, Hiroyuki Hamada, Yukihiro Eguchi, Masahiro Okamoto, Blind spot of G1/S checkpoint: G1/S checkpoint is invaded by DNA-damage after R-point, The proceedings of the International Symposium on Computational Biology and Bioinformatics, 3, 241-246, 2008.
Hiroyuki Hamada, Tomokazu Karino, Shinji Namoto, Akihiro C Yamashita, Makoto Ishizaki, Masahiro Okamoto, Development of Computer-Aided Diagnostic System for Peritoneal Dialysis: NAVI Light(TM), The proceedings of International Federation for Medical and Biological Engineering, 25, 1818-1821, 2009.
Kazunari Iwamoto, Yoshihiko Tashima, Hiroyuki Hamada, Yukihiro Eguchi, Masahiro Okamoto, Mathematical modeling and Sensitivity analysis of G1/S phase in the cell cycle including the DNA damage signal transduction pathway, Biosystems, 94, 109-117, 2008.
Abdullah Al Mamun, Hiroyuki Hamada, Tomokazu Karino, Shinji Namoto, Akihiro C. Yamashita, Makoto Ishizaki, Masahiro Okamoto, Clinical Application of Computer-Aided Diagnostic System for Harmonious Introduction of Complementary Dialysis Therapy, The Open Biomedical Engineering Journal, 2, 10-16 , 2008.
