Skip to content

Narrow screen resolution Wide screen resolution Increase font size Decrease font size Default font size
You are here: Home arrow Faculty/Staff
Masaru Tomita
 Director and Professor,Institute for Advanced Biosciences, Keio University

 

Contact:

tomita[@]ttck.keio.ac.jp

Laboratory for Bioinformatics, Institute for Advanced Biosciences 252-0882 Fujisawa, Japan

Degree / Specialization:

Ph.D. in Computer Science, Ph.D. in Molecular Biology

Brief Biography:

Masaru Tomita is a Professor and the Director of the Institute for Advanced Biosciences, Keio University.

He received B.S (1981) in Mathematics from Keio University, M.S (1983) and Ph.D. (1985) from Computer Science Department of Carnegie Mellon University, and another Ph.D. (1994) in Molecular Biology from Keio University.

Dr. Tomita is a recipient of Presidential Young Investigators Award from National Science Foundation of USA (1988), IBM Japan Science Prize(2002), Shared University Research Award(2003) from IBM Corporation, Minister for Science and Technology Policy Award(2004)and various other awards.

Education:

1981.3  Keio University   B.S.  Mathematics

1983.9  Carnegie Mellon University   M.S.  Computer Science

1985.5  Carnegie Mellon University   Ph.D.  Computer Science 

Doctorate degrees:

1985.5  Carnegie Mellon University   Ph.D.  Computer Science

1994.7   Kyoto University  Ph.D. Electrical Engineering   

1998.3  Keio University   Ph.D.  Molecular Biology

Professional positions:

1985.5 Research Associate, School of Computer Science, Carnegie Mellon
University

1987.7 Assistant Professor, School of Computer Science, Carnegie Mellon
University

1987.1 Carnegie Mellon University, Center for Machine Translation,
Associate Director

1990.9  Associate Professor, School of Computer Science, Carnegie Mellon
University

1990.6 Associate Professor, Keio University, Faculty of Environment and
Information Studies

1997.4 Professor, Keio University, Faculty of Environment and Information
Studies

2001.4 Director, Institute for Advanced Biosciences, Keio University

2003.7  Founder, Human Metabolome Technologies, Inc.

2005.10-2007.9 Dean, Faculty of Environment and Information Studies, Keio University

Honors:

1988.3 Presidential Young Investigator's Award from National Science Foundation of USA

1998.11 Gijuku Award

1999.10 Gold Medal, Tokyo Techno-forum21

2002.11 IBM Japan Science Prize

2003.11 Shared University Research Award(IBM Corporation)

2004.6 Minister of Science and Technology Policy Award

2007.4 The Commendation for Science and Technology by the Minister of Education,Culture,

             Sports, Science and Technology

2009.8  Recognition of Distinguished Service, International Society of Metabolomics

2009.11  Fukuzawa Award

Board member:

①Systems and Synthetic Biology ②Molecular Systems Biology ③BMC Bioinformatics: Editorial Board ④BMC Biology ⑤Journal of Metabolomics ⑥Bioinformatics and Computational Biology ⑥Gene ⑦Computational Linguistics ⑧Grammar ⑨BMC Research Notes ⑩Cell Biology Insights ⑪The Automated Experimentation journal ⑫BMC Biochemistry

Editorial board:

①Systems and Synthetic Biology ②Molecular Systems Biology ③BMC Bioinformatics: Editorial Board ④BMC Biology ⑤Journal of Metabolomics ⑥Bioinformatics and Computational Biology ⑥Gene ⑦Computational Linguistics ⑧Grammar ⑨BMC Research Notes ⑩Cell Biology Insights ⑪The Automated Experimentation journal ⑫BMC Biochemistry

Research Activities & Projects:

Systems Biology, Bioinformatics, Metabolomics, Genome Informatics, and Biological Simulation.

Keywords:

Systems Biology, Bioinformatics, Metabolomics, Genome Informatics, and Biological Simulation.

Publications:

  •  “Non-targeted metabolite profiling in activated macrophage secretion”
Sugimoto, M., Sakagami, H., Yokote, Y., Onuma, H., Kaneko, M., Mori, M.,
Sakaguchi, Y., Soga, T. and Tomita, M. Metabolomics
DOI:10.1007/s11306-011-0353-9 (2011)
  •  "Metabolic flux analysis and visualization" Toya, Y., Kono, N., Arakawa,
K. and Tomita, M.  J. Proteome Res. 10 : 3313-3323 (2011)
  • “G-language genome analysis environment with REST and SOAP web service
interfaces” Arakawa, K., Kido, N., Oshita, K. and Tomita, M. Nucleic Acids
Res.  38:W700-W705(2010)
  •  “Systematic identification of cell cycle-dependent yeast
nucleocytoplasmic shuttling proteins by prediction of composite motifs”
Kosugi, S., Hasebe, M., Tomita, M. and Yanagawa, H. Proc Natl Acad Sci U S
A. 106:10171-6(2009)
  •  “Tri-split tRNA is a transfer RNA made from 3 transcripts that provides
insight into the evolution of fragmented tRNAs in archaea” Fujishima, K.,
Sugahara, J., Kikuta, K. Hirano, R.,Sato, A., Tomita, M. and Kanai, Proc
Natl Acad Sci U S A. 106:2683-7(2009)
  • “Capillary electrophoresis mass spectrometry-based saliva metabolomics
identified oral, breast and pancreatic cancer-specific profiles” Sugimoto,
M., Wong, D. T., Hirayama, A., Soga, T. and Tomita, M. Metabolomics 6:78-95.
(2009)
  •  “Multiple high throughput analyses monitor the response of E. coli to
perturbations” Ishii, N., Nakahigashi, K., Baba, T., Robert, M., Soga, T.,
Kanai, A., Hirasawa, T., Naba, M., Hirai, K., Hoque, A., Yee, Ho, Pei.,
Kakazu, Y., Sugawara, K., Igarashi, S., Harada, S., Masuda, T., Sugiyama,
N., Togashi, T., Hasegawa, M., Takai, T., Yugi, K., Arakawa, K., Iwata, N.,
Toya, Y., Nakayama, Y., Nishioka, T., Shimizu, K., Mori, H. and Tomita, M.;
Science 316, 593-597 (2007)
  • "Simulation study of methemoglobin reduction in erythrocytes. Differential
contributions of two pathways to the tolerance of oxidative stress”
Kinoshita, A., Nakayama, Y., Kitayama, T. and Tomita, M. FEBS Journal 274 :
1449-1458 (2007)
  •  "Permuted tRNA Genes Expressed via a Circular RNA Intermediate in
Cyanidioschyzon merolae" Soma, A., Onodera, A., Sugahara, J., Kanai, A.,
Yachie, N., Tomita, M., Kawamura, H. and Sekine, Y.; Science 318:5849,
450-453 (2007)
  •  “Whole cell simulation: A grand challenge of the 21st century” Tomita,
M.: Trends in Biotechnology, 19:6, 205-210 (2001)
  • "E-CELL: Software environment for whole cell simulation"
Tomita,M.,Hashimoto, K., Takahashi, K., Shimizu, T., Matsuzaki, Y., Miyoshi,
F., Saito, K., Tanida, S., Yugi, K., Venter, J.C. and Hutchison, C.:
Bioinformatics, 15:1, 72-84 (1999)

Detailed Pu†blication List

Links