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A Guide to Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology http://www.bio.titech.ac.jp/ TOKYO INSTITUTE OF TECHNOLOGY Contents Foreword 2 Introduction 3 Undergraduate Programs 4 Graduate Programs 5 Academic Staff 1 Department of Life Science 7 Department of Biological Sciences 9 Department of Biological Information 11 Department of Bioengineering 13 Department of Biomolecular Engineering 15 Endowed Research Laboratories 17 Collaborative Organizations 18 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Foreword T he School and the Graduate School of Bioscience and Biotechnology are world-class schools with the aim of educating and training students who have the pioneering spirits to explore the new realms of bioscience and biotechnology. The School and Graduate School were reorganized into five Graduate School Departments in association with two Undergraduate School Departments with the intention of establishing a research oriented educational system in 1999-2000. Our school has admitted the International Graduate Course for students from overseas countries and provided them with the high level education of bioscience and biotechnology. International graduate program will provide opportunities to pursue advanced studies. We have and hold always a high priority and activity at the frontier of the research. It is our hope that the School and the Graduate School, will maintain its high educational and research standards of Bioscience and Biotechnology, and continue to turn out professionals par excellence through multi-disciplinary education and training of ambitious students rising to meet the challenges of the future. Professor Mitsuo Sekine, Dean 2 Introduction T his faculty was established in 1990 with the intention of contributing not only to education but also to research in the integrated field of bioscience and biotechnology. In 1992, the Graduate School of Bioscience and Biotechnology was established with two courses, followed by the launch of the International Graduate Course in 1993. The Gene Research Center, Research Center for Experimental Biology and Radioisotope Research Center were completed as part of the infrastructure in 1993, 1997 and 2001, respectively. These three centers were reorganized in 2003 as the Center for Biological Resources and Informatics. The School of Bioscience and Biotechnology was reorganized in 1999 into two departments: the Department of Bioscience and the Department of Biotechnology. The Graduate School of Bioscience and Biotechnology was also reformed in 1999. Three Graduate School Departments were opened in 1999, and two more in 2000. The Graduate School, School of Bioscience and Biotechnology and Center for Biological Resources and Informatics are well organized and located on the Suzukakedai campus of the Tokyo Institute of Technology. In the latter half of the last century, remarkable progress was made in the life sciences, exerting a profound impact on industry and human welfare. Several features that define our school and graduate school are as follows. 1. The Graduate School and School of Bioscience and Biotechnology are home to more than 60 laboratories working hand-in-hand in such diverse fields as chemistry, biochemistry, medical science, pharmaceutical science, agriculture and engineering. These close inter-relationships fostered by a community sharing a single building help to enhance research activities. 2. Each department and laboratory is fully equipped with the latest facilities, analytical instruments and computers, all for the mutual use and convenience of laboratory personnel. 3. Each student can easily attend a variety of lectures and seminars in the School and Graduate School, irrespective of which department he or she belongs to. This provides students with unparalleled exposure to the many facets and interdisciplinary resources of bioscience and biotechnology. 4. A number of well-known guest lecturers from both within and outside of Japan visit the campus to share their expertise on various topics. 5. Thanks to the presence of numerous students and researchers from abroad, the atmosphere at the School and Graduate School is quite international. In 2011, Educational Academy of Computational Life Sciences (ACLS) was selected as the Leading Program for Doctoral Education of Japan Society for the Promotion of Science (JSPS), which will provide a 5-year integrated training course with the aim of developing talented students into future global leaders in interdisciplinary fields of life science and information science. School of Bioscience and Biotechnology Admission Quota 1st year M Bioscience Biotechnology 1st year Total 75 75 * 10 150 2nd year F 133 133 (May 01, 2012) 29 29 3rd year 4th year Grand Total Total M 54 58(1) F 7 29(2) M 62(1) 66 F 7 19(2) M 75(1) 71(1) F 12(1) 18(1) 112(1) 36(2) 128(1) 26(2) 146(2) 30(2) M 191(2) 195(2) 133 519(4) F 26(1) 66(5) 29 121(6) Graduate School of Bioscience and Biotechnology (May 01, 2012) Master's Course Doctoral Course Admission Quota F M F M 29 17 11(3) 27(1) 6(4) 44(1) 17(7) 63(8) 8 3 1(1) 6(1) 1(1) 9(1) 2(1) 18(2) 4(3) 22(5) Department of Biological Sciences 26 12 8(2) 20(1) 7(1) 32(1) 15(3) 52(5) 9 4 2(2) 5(2) 1 12(1) 12(3) 21(3) 15(5) 36(8) 57(1) 9 7 1 4 3(2) 10(4) 2(1) 21(4) 6(3) 27(7) 8(3) 6(3) 4(1) 1 3 2(2) 15(4) 9(5) 24(9) 7(3) 29(8) Department of Bioengineering 30 Department of Biomolecular Engineering 30 Total 146 1st year 2nd year M M F 22(2) 9(2) 21 26 6(1) 20(1) 26 5(1) 25 F Total M F 5 43(2) 14(2) 9 46(1) 15(1) 66(12) 7 3(2) 51 8(3) 55(5) 1st year 2nd year 3rd year F Doctoral Course Total Master's Course Total Admission Quota M Department of Life Science Department of Biological Information 31 Total M F 11 8(1) 2 4(2) 2(1) 10(2) 3(2) 22(5) 103(2) 39(9) 113(3) 30(7) 216(5) 69(16) 285(21) 44 30(4) 12(6) 23(6) 8(4) 44(8) 21(9) 97(18) 41(19) 138(37) Note:1. Figures marked with * represent the number of transfer students moving into the 3rd year. 2. Figures given in parenthesis represent the number of students from abroad. 3 217 (3) 261 (7) 162 640 (10) Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Undergraduate Programs http://www.gakumu.titech.ac.jp/nyusi/prospectus/index_e.html Standard Program Japanese language is essential for all undergraduate programs. 1st year 2nd year Course 3rd & 4th years Life Science Bioscience Biological Sciences School of Bioscience and Biotechnology Biological Information Biotechnology Bioengineering Biomolecular Engineering Special Education Opportunities Four-University Joint Education Course This Joint Education Course was established in 2001, with the aim to foster new types of graduates and to promote educational and research activities. The participating universities are Tokyo Tech, Tokyo Medical and Dental University, Tokyo University of Foreign Studies and Hitotsubashi University. This course provides stu- dents with increased curriculum choices and a network of personal contacts with the other three universities. Not only does this course contribute to advances in academic fields, but it also gives students the opportunity to improve themselves in various ways. Support Program for Distinctive University Education The department started an educational program from 2005 for freshmen with the purpose of fostering the creativity of each individual student. Freshmen compete in the development of bio-related educational materials for elementary and junior high school students. They work on their projects and finally compete by presenting their products in the Tokyo Tech Bio-Contest. The program, which is open to public, was selected as a "Distinctive University Education Support Program-Good Practice" by The Ministry of Education, Culture, Sports, Science and Technology in 2006. 4 Graduate Programs http://www.gakumu.titech.ac.jp/nyusi/igp/top.html Standard Program The International Graduated Course offers five departments as listed below. Department of Life Science Department of Biological Sciences Graduate School of Bioscience and Biotechnology Department of Biological Information Department of Bioengineering Department of Biomolecular Engineering International Graduate Course Research in biological science and technology is now an area of stiff competition worldwide. One of the important challenges in this field is to foster human resources with skills that are adequate for developing and using the various global standard core technologies. Regarding in the large role that Asia has played in this development, especially in the field, it is of great significance that Tokyo foster excellent students within our various and sophisticated educational programs by exposing them to the advanced science and technology that underpins medical and environmental industries and to other related areas of bioscience and biotechnology. At the same time, through enhanced exchanges between international and Japanese students, we produce high-level researchers Institute of Technology has played a leading role in fostering high-level human resources. Within such global dynamics, Graduate School of Bioscience and Biotechnology has launched a new program "International Bioscience and Biotechnology Course" within our Integrated Doctoral Education Program, with the aim to and engineers who will play important roles as national and global leaders. The program commences in October of every year, and the students are selected on December based on application documents and interviews. The contents relating to student education are conducted in English. Integrated Doctoral Education Program Sophisticated young graduates of the Integrated Doctoral Education Program can obtain a doctoral degree within three to five years through this educational program that includes long-term study experience in foreign countries and a company internship program. Graduates of this pro 5 gram enter into educational careers, research careers or professional careers directly related to the subject area of their doctoral degree. They have a wide variety of career options, through which they can contribute to a more sophisticated society. Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Educational Academy of Computational Life Sciences Educational Academy of Computational Life Sciences (ACLS) is organized to educate talented persons who will become global leaders in the interdisciplinary fields between life science and information science. ACLS provides a 5-year integrated training course (combining master's and doctor's program) for interdisciplinary and global education on computational life sciences. The program is funded by Leading Program for Doctoral Education, Ministry of Education, Culture, Sports, Science and Technology. The graduate school's teaching staff of bioscience and biotechnology, interdisciplinary science and engineering, and information science and engineering cooperate closely on this scientific educational program. Graduate students who major in life science or information science can obtain various merits through joining this educational program, including financial supports, mentoring service, as well as best training opportunities. Each student can be affiliated with both the ACLS program and his/her own major. A student who finish this 5-year course can earn a special doctorial degree with the diploma from ACLS. Special Research and Educational Opportunities Tokyo Institute of Technology - Tsinghua University Joint Graduate School Program Tokyo Institute of Technology and Tsinghua University (P.R. China) are carrying out a Joint Graduate School Program of Master and Doctoral Courses. The main objective of this strategic program is to train students who not only have professional knowledge and techniques but are also versed in the two cultures, by using three languages (Japanese Chinese and English). The Bio-course (Bioscience and Biotechnology course) has historically played a central role at the center of three courses: Bio-course, Nanotech-course, and Decision Science & Technology course. Faculty, students, and industry representatives deepen their mutual understanding through symposia held in Beijing and Tokyo. This pro gram provides an ideal opportunity for promoting international relations and producing young scientists and engineers who will contribute to the industrial and cultural development of the two countries as well as the rest of the world. Tokyo Tech-RIKEN International School Tokyo Tech and the Institute of Physical and Chemical Research (RIKEN) have collaborated and cooperated together to create the Tokyo Tech-RIKEN International School, the main purpose of which is to offer foreign students an opportunity to obtain a Doctoral degree. Our graduate school covers a doctoral course for Bioscience and Biotechnology. Students who enroll at the Tokyo Tech-RIKEN International School conduct their research at both Tokyo Tech and RIKEN with their work supervised by academic advisors from both institutions. Students in this school will be adopted as International Program Associates (IPA), subject to review and approval of both the Tokyo Tech and RIKEN. The contents relating to student education are conducted in English. 6 Academic Staff Department of Life Science Prof. Hiroshi ICHINOSE Collaborating Staff: Assist. Prof. Hirofumi TOKUOKA E-mail Address: [email protected] Keywords: Dopamine, Parkinson's Disease, Tetrahydrobiopterin Research Interests and Objectives: Monoamine neurotransmitters modulate higher-order brain function, such as coordination of movement, short-term memory, motivation, sleep, and emotion. The objective of our study is to reveal regulatory mechanisms for the synthesis of monoamine neurotransmitters, and to shed light on the causes of neuro-psychiatric disorders. Assoc. Prof. Nobuhiro HAYASHI E-mail Address: [email protected] Keywords: P rotein Science, Proteomics, Membrane lipid raft, Antibody, Myristoylation, Calmodulin, HIV Nef Research Interests and Objectives: Comprehensive identification of protein N-myristoylations in cell, and studies of communication mechanism between membrane fractions and cytoplasmic fractions regulated by myristoylated proteins. Molecular mechanism of signal processing in membrane lipid rafts. Development of technologies for single molecule tracking. Development of bio nano-machines using antibodies as their prototypes. Studies based on our developed High Performance Proteomics technique. Assoc. Prof. Toshiya OSADA E-mail Address: [email protected] Keywords: Olfactory and Vomeronasal Systems, AFM Research Interests and Objectives: We are interested in the olfactory and vomeronasal systems, which are chemical communication with odorants and pheromones. The major research interests are focused upon the molecular basis of detection and recognition of odorant and pheromone, and the developments of vomeronasal neurons. Prof. Satoshi MURAKAMI Collaborating Staff: Assist. Prof. Ui OKADA E-mail Address: [email protected] Keywords: Protein crystallography, Structural biology, Membrane proteins, Transporters. Research Interests and Objectives: We seek to understand molecular mechanisms of certain key biological processes, as well as membrane transport at the level of protein structure, dynamics, and functional mechanism. We focus on the questions of how membrane proteins and transporter proteins work at atomic resolution structure mainly by means of X-ray crystallography. Prof. Hideya YUASA Collaborating Staff: Assist. Prof. Atsushi SHIMOYAMA E-mail Address: [email protected] Keywords: Carbohydrate Chemistry, Molecular Device, Luminescent Materials Research Interests and Objectives: Creation of functional carbohydrate derivatives Development of luminescent materials. Assoc. Prof. Akihiro OHKUBO E-mail Address: [email protected] Keywords: B ioorganic Chemistry, Carbohydrate Chemistry, Nucleic Acid Chemistry, Photodynamic Therapy, Gene Therapy Research Interests and Objectives: Our research group is interested in development of new drugs for regulation of transcription and splicing by using carbohydrate and nucleic acid analogs. Additionally, we design and synthesize new luminescent materials. Prof. Fumio ARISAKA Collaborating Staff: Assist. Prof. Shuji KANAMARU E-mail Address: [email protected] Keywords: Bacteriophage Assembly/Protein Interactions Research Interests and Objectives: Mechanism of assembly and infection of bacteriophage. Structural biology of bacteriophage. 7 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Prof. Mitsuo SEKINE Collaborating Staff: Assist. Prof. Akihiro OHKUBO E-mail Address: [email protected] Keywords: N ucleic Acid Chemistry, Modified DNA/RNA, DNA Chip, Gene Diagnosis/Detection, Antisense/ Antigene Strategy Research Interests and Objectives: Our research group is developing new strategies for the synthesis of a wide variety of chemically modified oligonucleotides that can serve as new tools for gene detection, gene therapy, and regulation of gene expression. Assoc. Prof. Kohji SEIO E-mail Address: [email protected] Keywords: Organic Chemistry of Artificial DNA and RNA, Molecular Recognition of Nucleic Acids Research Interests and Objectives: We are studying the synthesis and development of new artificial nucleic acids, which include new DNAs and RNAs having the precise hybridization properties, the dynamic fluorescence and the unique branched structures. These new molecules are potentially useful for various techniques such as gene detection, SNPs analysis, nucleic acid drugs and DNA microarrays. Prof. Toru HISABORI (Chemical Resources Laboratory) Collaborating Staff: Assist. Prof. Jiro NOMATA E-mail Address: [email protected] Keywords: Bioenergetics, Redox Regulation, ATP synthesis Research Interests and Objectives: We are studying the regulation of the various enzymes in photosynthetic organisms. 1. Redox regulation of plant proteins by thioredoxins. 2. Regulation of chloroplat ATP synthase. 3. Applied study using cyanobacterial metabolic pathway. Prof. Susumu KAJIWARA E-mail Address: [email protected] Keywords: Drug Discovery, Pathogen, Lipid, Transporter, Energy Research Interests and Objectives: Our laboratory has studied in the field of medical and environmental biotechnology and, in present, focuses on "drug discovery for infection diseases", "mechanism of infection and growth of pathogenic microorganisms", "function analysis of human multi-drug efflux pomp using microbial systems" and "bio-ethanol and bio-diesel production by genetic-engineered yeasts". Assoc. Prof. Yasunori AIZAWA (Center for Biological Resources and Informatics) E-mail Address: [email protected] Keywords: R etrotransposon, DNA methylation, Intergenic RNA, Intrinsically disordered protein (IDP), signal transduction Research Interests and Objectives: 1. To screening and characterize novel protein-encoding genes found in the intergenic regions of the human genome. 2. To pursue molecular mechanisms in signal transduction by IDPs. 3. To elucidate regulation mechanism and functional consequence of epigenetic status on retrotransposons in the human genome. Prof. Ichiro HIRAO (RIKEN) E-mail Address: [email protected] Keywords: S ynthetic Biology, Nucleic Acid Molecular Biology, Expansion of the Genetic Information, Nucleic Acid Diagnostics and Therapeutics Research Interests and Objectives: Our research focuses on using synthetic biology techniques to engineer biomolecules, especially nucleic acids, and cells. Our main objective is to expand genetic alphabet of DNA by introducing an artificial extra base pair (unnatural base pair) toward next generation biotechnology. The Other Research Staff:Assist. Prof. Shinya KANEKO Assist. Prof. Takao SATO 8 Academic Staff Department of Biological Sciences Assoc. Prof. Nobuhiro NAKAMURA E-mail Address: [email protected] Keywords: Molecular Cell Biology, Ubiquitination, Mitochondrial Dynamics, Sperm Development Research Interests and Objectives: Our research focuses on novel regulators of ubiquitination and their roles in the regulation of cellular and organelle functions and morphology in mammalian cells. Prof. Hiroshi IWASAKI Collaborating Staff: Assist. Prof. Yasuhiro TSUTSUI E-mail Address: [email protected] Keywords: M olecular Genetics and Biochemistry, Homologous Recombination and Recombination Repair, Genome Integrity, DNA Damage Response Research Interests and Objectives: The mechanism of homologous recombination (HR) does not only contribute to the diversity of the genome, but is also vital for repairing DNA and maintaining genome stability. In addition, when replication ceases for some reason (i.e. DNA damages at the template strand), HR plays an important role in a resumption of replication. We are exploring the molecular mechanisms involved in these various functions of HR. Assoc. Prof. Masaki KAJIKAWA E-mail Address: [email protected] Keywords: Molecular Biology, Genetics Research Interests and Objectives: My research interest is the evolution of the eukaryotic genome. There are many copies of mobile genetic elements in the eukaryotic genome. The mobilization/amplification of these genetic elements is considered to have a large impact on the genome evolution. I am studying to elucidate the amplification mechanism of Long Interspersed Element (LINE), which is the most abundant element in the human genome. Prof. Tatsuo MOTOKAWA Collaborating Staff: Assist. Profs. Masaki TAMORI E-mail Address: [email protected] Keywords: Echinoderm Biology Research Interests and Objectives: Echinoderms such as sea lilies and sea cucumbers have stiffness-mutable connective tissues (SMCT) that change their mechanical properties under nervous control. We are studying the molecular mechanism of the stiffness changes, the characteristics of the nerves controlling SMCT, the biomechanics and energy consumption of SMCT. The behavior of echinoderms is also in our interest: the directional preference and the walking mechanism of sea urchins are under study. Assoc. Prof. Yuichi HONGOH E-mail Address: [email protected] Keywords: Molecular Ecology, Environmental Genomics Research Interests and Objectives: 1. Revealing the ecology of uncultivable microorganisms and their interrelationships in environments by using molecular tools. 2. Understanding symbioses between gut microorganisms and their animal hosts. Assoc. Prof. Masayuki KOMADA E-mail Address: [email protected] Keywords: Cell Biology, Ubiquitin, Protein Degradation, Membrane Traffic Research Interests and Objectives: Our group studies ubiquitin-dependent regulation of mammalian cell functions (e.g., growth factor receptor downregulation), with the aim of discovering new therapeutic targets for human diseases such as cancer. Assoc. Prof. Mikiko TANAKA E-mail Address: [email protected] Keywords: Evolutionary Developmental Biology Research Interests and Objectives: Main aim of our research is to explore the fundamental body plan of vertebrates, especially in relation to formation of limbs. 9 The Other Research Staff:Assist. Prof. Akira KATO, Assist. Prof. Masato NIKAIDO, Assist. Prof. Hidenori NISHIHARA Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Assoc. Prof. Takashi SUZUKI (Core Division of Advanced Research) E-mail Address: [email protected] Keywords: Developmental Neurobiology, The Drosophila Visual System, Axon Guidance and Synapse Formation Research Interests and Objectives: We study the molecular mechanisms underlying neuronal circuit formation during development. We aim to reveal how axons choose their specific synaptic-layers in the brain, and how specificities of synaptic connections are determined using molecular-genetic, histological and biochemical approaches. Prof. Hiroyuki OHTA (Center for Biological Resources and Informatics) Collaborating Staff: Assist. Prof. Mie SHIMOJIMA E-mail Address: [email protected] Keywords: Plant Biochemistry, Plant Molecular Biology Research Interests and Objectives: Our group studies on biogenesis, function and evolution of photosynthetic apparatus in a broad range of photosynthetic organisms. We particularly have an interest in higher plant chloroplasts. Chloroplast is involved in not only photosynthesis, but also various important processes in plants. We regard chloroplast membrane lipids have a significant importance in chloroplast biogenesis and signaling, and currently focus our research on their function. Assoc. Prof. Shinji MASUDA (Center for Biological Resources and Informatics) E-mail Address: [email protected] Keywords: Plant Physiology, Microbiology, Biochemistry, Photobiology Research Interests and Objectives: Our research interests are molecular mechanisms of how photosynthetic organisms respond to environmental changes such as alteration of oxygen tension and light intensity. The evolutional aspects of the signaling networks controlling photosynthesis gene expression in different species and environmental conditions are also our interests. Prof. Takehiko KOBAYASHI (Research Organization of Information and Systems National Institute of Genetics) E-mail Address: [email protected] Keywords: Genome integrity, Senescence, Rejuvenation, Asymmetrical Cell Division Research Interests and Objectives: Organisms are alternating generations and maintaining their species. During the life cycle, though most of cells age to die, germ and stem line cells are kinds of “immortal” cells, and maintain species and individuals. We study how those cells “rejuvenate” and keep the integrity of genome. Prof. Kan TANAKA (Chemical Resources Laboratory) E-mail Address: [email protected] Keywords: Bacteria, Organelles, Symbiosis, Eukaryotes, Evolution, Cell Biology Research Interests and Objectives: Understanding of the symbiotic construction and evolution of eukaryotic cells. Regulatory architecture of bacteria and organelles are also the main focus of our group. Prof. Yoshinori OHSUMI (Frontier Research Center) Collaborating Staffs: Assist. Profs. Hayashi YAMAMOTO and Yasuhiro ARAKI E-mail Address: [email protected] Keywords: Autophagy, Protein Turnover, Starvation Response, Cell Growth Research Interests and Objectives: Our group studies membrane dynamics essential for autophagy and physiological significance of autophagy in various cellular activities. Assoc. Prof. Hitoshi NAKATOGAWA (Frontier Research Center) E-mail Address: [email protected] Keywords: Biochemistry, Molecular Cell Biology, Membrane Dynamics, Autophagy Research Interests and Objectives: Our group studies molecular mechanisms of autophagy, especially focusing on those underlying the de novo formation of double membrane-bound structures, autophagosomes, which sequester material to be transported to and degraded in the lysosome or the vacuole. The Other Research Staff:Assist. Prof. Kimitoshi DENDA, Assist. Prof. Toshiaki TANAKA 10 Academic Staff Department of Biological Information Assoc. Prof. Kazunori TACHIBANA (Center for Biological Resources and Informatics) E-mail Address: [email protected] Keywords: Cell Biology, Developmental Biology Research Interests and Objectives: We use starfish oocytes, eggs and early embryos to study: 1. How is the meiotic spindle localized to the oocyte cortex? 2. How does fertilization start egg development? 3. How does pronuclear (genome) union occur? Assoc. Prof. Yuki YAMAGUCHI Collaborating Staff: Assist. Prof. Satoshi SAKAMOTO E-mail Address: [email protected] Keywords: Biochemistry, Molecular Biology, Genome Expression Research Interests and Objectives: Through a combination of biochemistry, genetics, and molecular biology, we are promoting both basic and applied research, particularly on (1) the regulatory mechanisms of genome expression, RNA metabolism, and epigenetics and (2) the mechanisms of action of small-molecule compounds for drug discovery and development. Prof. Akira KUDO Collaborating Staff: Assist. Profs. Keiji INOHAYA and Masahiro CHATANI E-mail Address: [email protected] Keywords: Organogenesis and Tissue Regeneration in Medaka Research Interests and Objectives: To reveal the molecular mechanism of organ formation and tissue regeneration, we performed the next projects using medaka as an animal model. 1. Mutational analysis of organogenesis. 2. Molecular mechanism of regeneration. 3. Molecular mechanism of bone formation. Assoc. Prof. Atsushi KAWAKAMI E-mail Address: [email protected] Keywords: Developmental Genetics, Regeneration Research Interests and Objectives: Higher order of biological phenomena in multi-cellular organisms such as organ formation and regeneration are supported by complex cascades of signaling molecules and their regulative pathways. Our research interest is to elucidate molecular bases and networks that govern pattern formation, organogenesis and maintenance and/or regeneration of tissues using small fish species like zebrafish and medaka fish as model systems. Prof. Takehiko ITOH E-mail Address: [email protected] Keywords: Genome Informatics, Bioinformatics 1. Analysis of the data obtaining from new ultra-high throughput DNA sequencer 2. Bioinformatics analysis of the eukaryotic genome 11 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Prof. Ken KUROKAWA Collaborating Staff: Assist. Profs. Hiroshi MORI E-mail Address: [email protected] Keywords: Genome Informatics, Genome and Metagenome analysis, Bioinformatics Research Interests and Objectives: Origins and evolution of genome organization. Particularly interested in the correlation between genome infor mation and biosystem evolution. Elucidation of complexity and robustness in microbial community. Assoc. Prof. Takuji Yamada E-mail Address: [email protected] Keywords: Genome/Metagenome analysis, Metabolic pathway analysis, Bioinformatics Research Interests and Objectives: Prediction and elucidation of genes and proteins function by computational analysis of genome and metagenome data, toward understanding of cellular molecular systems. Prof. Makio TOKUNAGA Collaborating Staff: Assist. Prof. Akihiro FUKAGAWA E-mail Address: [email protected] Keywords: Single Molecule Biology, Microscopy, Immune Cell Signaling, Molecular Systems Biology Research Interests and Objectives: We pioneer a new field of single molecule biology based on our original technique of molecular imaging. Using the combination of single molecule quantification and "in silico" modeling, we aim to open up new frontiers for understanding cells as molecular systems. Assoc. Prof. Kumiko Sakata-Sogawa E-mail Address: [email protected] Keywords: single molecule imaging, cell signaling, immunological responses, quantification Research Interests and Objectives: The focus of our research is to elucidate immunological responses and signaling processes with the technique of single molecule imaging and quantification. We also study the dynamics and function of physicochemical field of genetic activities. Assoc. Prof. Motomasa TANAKA (RIKEN Brain Science Institute) E-mail Address: [email protected] Keywords: Neuropsychiatric disease, Functional amyloid, Prion Research interests and objectives: 1) Molecular mechanism of neurodegeneration and mental disorder 2) Structural basis of yeast prion strain and transmission barrier 3) Identification and characterization of novel functional amyloid and prion Assoc. Prof. Masanori Murayama (RIKEN, Brain Science Institute) E-mail Address: [email protected] Keywords: Neurophysiology, Local network activity, Dendrite, Somatosensory, Virtual reality environment. Research Interest and Objectives: We focus on the causal relationship between behavior and neural activity at the single-cell, micro-circuit and network levels. We are also interested in developing new techniques to discover novel neural activities that can be used for understanding brain functions and animal behavior. 12 Academic Staff Department of Bioengineering Prof. Satoshi NAKAMURA Collaborating Staff: Assist. Prof. Rie YATSUNAMI, Assist. Prof. Wataru TSUKIMURA E-mail Address: [email protected] Keywords: Protein Engineering, Genetic Engineering, Directed Evolution, Extremophiles, Extremozymes Research Interests and Objectives: We are doing researches on extremozymes produced by extremophiles using genetic engineering, protein engineering and directed evolution. Assoc. Prof. Toshiaki FUKUI Collaborating Staff: Assist. Prof. Izumi ORITA E-mail Address: [email protected] Keywords: Hyperthermophile, Biopolyester Research Interests and Objectives: Studies on hyperthermophilic archaea and microbial synthesis of biodegradable polyesters by recombinant bacte ria, using strategies based on genetic engineering, genome engineering, and metabolic engineering. Prof. Yukihisa HAMAGUCHI Collaborating Staff: Assist. Prof. Sumio ISHIJIMA E-mail Address: [email protected] Keywords: Bioimaging, Cytokinesis, Flagellar Movement, Micromanipulation, Sea Urchin Research Interests and Objectives: 1) Formation of the motile apparatus and force generation mechanism during cell division. 2) Analysis of three-dimensional movement of sperm flagella and its control mechanism. Prof. Masaaki WACHI Collaborating Staff: Assist. Prof. Noritaka IWAI E-mail Address: [email protected] Keywords: Bacterial Cell Division, Antibiotics, RNase Research Interests and Objectives: Molecular and genetic analysis of bacterial cell division mechanism. Functional analysis of bacterial RNases. Screening of new antibiotics. Prof. Hisakazu MIHARA Collaborating Staff: Assist. Prof. Hiroshi TSUTSUMI E-mail Address: [email protected] Keywords: Peptide, Protein, Combinatorial Chemistry, Amyloid, Nanobiotechnology, Biochip Research Interests and Objectives: ・Peptide Chip (Microarray): protein/enzyme detection, characterization, and cell analyses. ・Amyloid Peptide/Protein: peptides and proteins that control amyloid formation of proteins in fatal diseases such as Alzheimer and prion. ・De Novo Design of Protein: design and synthesis of artificial proteins based on the first principle (amino acid sequence) using combinatorial approaches. Assoc. Prof. Tomoko MATSUDA E-mail Address: [email protected] Keywords: Biocatalysis, Asymmetric Synthesis, Carbon Dioxide Research Interests and Objectives: Research interest is in promotion of green chemistry by investigating biocatalytic reactions using carbon dioxide; for example, kinetic resolutions of racemic alcohol by lipase, asymmetric reduction of ketones by alcohol dehy drogenase, and carboxylation using decarboxylase. 13 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Prof. Yuichi KOBAYASHI Collaborating Staff: Assist. Prof. Narihito OGAWA E-mail Address: [email protected] Keywords: Asymmetric synthesis; Biologically active compounds. Research Interests and Objectives: Development of carbon-carbon bond forming reactions Design of synthetic methods Synthesis of natural compounds and analogues for biofunction Assoc. Prof. Noriyuki ASAKURA E-mail Address: [email protected] Keywords: Redox Proteins, Electrochemistry Research Interests and Objectives: Our goal is to understand and exploit the reactivities of redox-active sites and metalcentres in proteins. A major development of our group is application of electrochemistry and spectroscopy for measuring redox proteins. Prof. Yasunori TANJI Collaborating Staff: Assist. Prof. Kazuhiko MIYANAGA E-mail Address: [email protected] Keywords: Chemical/Environmental Bioengineering Research Interests and Objectives: Management of wastewater and excess sludge. Application of phage and phage-function for engineering. Characterization and controlling of microbiologically influenced corrosion. Assoc. Prof. Toshiaki KAMACHI E-mail Address: [email protected] Keywords: Bioinorganic Chemistry, Metalloenzyme Research Interests and Objectives: Elucidation of reaction mechanism of metalloenzymes. Development of enzymatic reaction system using metalloenzymes. Phosphorescence lifetime imaging for oxygen concentration. Assoc. Prof. Shun-ichiro OGURA (Core Division of Advanced Research) E-mail Address: [email protected] Keywords: Tumor imaging, Alternative therapy for tumor, Biomarker Research Interests and Objectives: 1. Development of new diagnosis and therapy of tumor using aminolevulinic acid 2. Development of new biomarker. Assoc. Prof. Junji HIROTA (Center for Biological Resources and Informatics) E-mail Address: [email protected] Keywords: Molecular Neuroscience & Genetics Research Interests and Objectives: Olfaction, the sense of smell, is a crucial sensory modality for most animals. By combining molecular, genetic and behavior analysis, we are trying to understand the molecular mechanisms underlying development of olfacto ry system. Prof. Hiroyuki KOJIMA (Ajinomoto Co., Inc.) Keywords: Fermentative production, Genetics of Industrial Microbiology Research Interests and Objectives: We aim to contributes to human health and environment globally, through research and development of total process of fermentative production of various kind of products. The Other Research Staff:Assist. Prof. Hiroshi IKEDA 14 Academic Staff Department of Biomolecular Engineering Prof. Takafumi UENO E-mail Address: [email protected] Keywords: Nanobiomaterials, bioinorganic chemistry, Protein Crystallography, Protein assembly Research Interasts and Objectives: 1. Construction of nanobiomaterials with protein assemblies 2. Catalytic reaction of metal ions in proteins 3. In vivo synthesis of protein crystals Prof. Hideki TAGUCHI Collaborating Staff: Assist. Prof. Tatsuya NIWA E-mail Address: [email protected] Keywords: Biochemistry, Protein Science, Protein Folding, Chaperones, Yeast Prions, Amyloids Research Interests: 1. Molecular mechanism and the cellular role of chaperone proteins such as chaperonin GroEL and DnaK/Hsp70. 2. Mechanism of yeast prion propagation and amyloid formation. 3. Global analysis of protein aggregates formation. Assoc. Prof. Hiroyuki OHTANI E-mail Address: [email protected] Keywords: Biophysical Chemistry, Laser Photolysis, Ultraweak Fluorescence, Bacteriorhodopsin, Halobacteria Research Interests and Objectives: 1. Time-resolved spectroscopy of biomolecular processes in the fs-ks time region. 2. Establishment of mechanical perturbation spectroscopy in nanoscale region. Prof. Atsushi MARUYAMA E-mail: [email protected] Keywords: Biomaterials, Bioconjugate materials, Drug/gene delivery systems, Cell-specific materials Research Interests and Objective: 1. Design and evaluation of biofunctional materials for biomedical applications 2. Material design for manipulation of biopolymer structures and functions 3. Cell specific materials for DDS and cell engineering Assoc. Prof. Yoh-ichi TAGAWA E-mail Address: [email protected] Keywords: Developmental Engineering, Liver, Artificial Liver System, Embryonic Stem Cell Research Interests and Objectives: The liver, which plays a major role in metabolism and has many functions, is essential and necessary for living. I'm working on regenerative medical engineering using embryonic stem cells, especially, embryonic stem cellderived liver tissue for applying to drug-metabolism assay and a bio-artificial liver system. Assoc. Prof. Takeshi HATA E-mail Address: [email protected] Keywords: Organic Chemistry; Organic Synthesis; Chiral Technology; Natural Product Synthesis; Biologically Active Compounds; Biomolecules; Medicinal Chemistry; Chemical Biology; Environmentally Benign Chemistry Research Interests and Objectives: Our research topics revolve around organic chemistry, particularly synthetic organic chemistry, involving asymmetric synthesis and organometallic chemistry. Their applications cover quite broad scientific fields that are represented by the keywords listed above. 15 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Prof. Shinae Kondoh Collaborating Staff: Assist. Prof. Tetsuya KADONOSONO E-mail Address: [email protected] Keyword: Molecular Oncology, Molecular Imaging, Nanomedicine Research Interests and Objectives: 1) Molecular mechanisms of malignant progression 2) Imaging and targeting tumor hypoxia 3) In vivo optical imaging Prof. Hirokazu URABE E-mail Address: [email protected] Keywords: Organic Chemistry; Organic Synthesis; Chiral Technology; Natural Product Synthesis; Biologically Active Compounds; Biomolecules; Medicinal Chemistry; Chemical Biology; Environmentally Benign Chemistry Research Interests and Objectives: Our research topics revolve around organic chemistry, particularly synthetic organic chemistry, involving asymmetric synthesis and organometallic chemistry. Their applications cover quite broad scientific fields that are rep resented by the keywords listed above. Assoc. Prof. Toshiaki MORI E-mail Address: [email protected] Keywords: Glycotechnology, Enzyme Engineering, Supercritical Fluid, Single-molecule Biochemistry Research Interests and Objectives: Bioorganic chemistry, glycobiology, and glycotechnology, especially focusing on the functions of glycoconju gates such as glycoproteins, glycolipids, and proteoglycanes by the glyco-chips. Prof. Minoru matics) SAKURAI (Center for Biological Resources and Infor- Collaborating Staff: Assist. Prof. Tadaomi FURUTA E-mail Address: [email protected] Keywords: biophysics, computational chemistry Research Interests and Objectives: 1. Photoactivation mechanisms of retinal proteins and PAS domains. 2. Quantum chemical approaches to structure-function relationships of proteins. 3. Biological role of trehalose as a protectant against environmental stresses. Prof. Masaaki KURIHARA (National Institute of Health Sciences) E-mail Address: [email protected] Keywords: Medicinal Chemistry, Chemical Biology, Organic Synthesis, Computer Chemistry Research Interests and Objectives: 1. Design and synthesis of ligands for nuclear receptors 2. Design and synthesis of stabilized helical peptides and its application 3. Design and synthesis of protein degradation inducers based on a protein knockdown strategy 16 Endowed Research Laboratories Advanced Free Radical Technology and Life Science Prof. Masahiro KOHNO E-mail Address: [email protected] Keywords: Active Oxygen, Free Radical, Redox System, Biomarker, Magnetic Resonance Research Interests and Objectives: Mechanism of oxidative stress damage associated with reaction oxygen spices by introducing bioinstrumentation equipment for genomics, proteomics, metabolomics, etc. Assoc. Prof. Atsuo IWASAWA E-mail Address: [email protected] Keywords: Control of Microorganisms, Infection Control Science Research Interests and Objectives: Studies on infection control by reactive oxygen species Assoc. Prof. Yuriko MATSUMURA E-mail Address: [email protected] Keywords: Antioxidant, Free Radical, Biomarker Research Interests and Objectives: Analysis of the oxidative stress by reactive oxygen species Medical and Biological Engineering Creation Prof. Hiroyuki YANAI E-mail Address: [email protected] Keywords: Technology Assessment, Translational Research, Medical Device Regulations Research Interests and Objectives: To brake the current stagnation and stimulate the strategic and efficient development and promotion of healthcare technologies in Japan Prof. Toshihiko OZAWA E-mail Address: [email protected] Keywords: Reactive Oxygen, Free Radical, Oxidative Stress, ESR, Anti-oxidants Research Interests and Objectives: 1) Studies on biomedical mechanisms on reactive oxygen and free radicals using electron spin resonance (ESR) spectroscopy 2) Development of new anti-oxidative substances 17 Graduate School of Bioscience and Biotechnology & School of Bioscience and Biotechnology Donated Chair of Biomaterials Design for Regenerative Engineering Prof. Toshihiro AKAIKE E-mail Address: [email protected] Keywords: Biomaterials, Regenerative medicine, Gene and drug delivery systems Research Interests and Objectives: Our research aims are to develop effective culture systems for various differentiations such as hepatocytes, cardiomyocytes, and nerve cells of ES/iPS cells using biomaterials. Assoc. Prof. Hirohiko ISE E-mail Address: [email protected] Keywords: Biomaterials, Cell biology, Glycobiology, Regenerative medicine Research Interests and Objectives: Development of effective cardiac differentiation for ES/iPS cells using biomaterials. Elucidation and regulation of new cellular functions by using biomaterials such as glycoside-conjugated materials. Assoc. Prof. Ichiro HARADA Email Address: [email protected] Keywords: Mechanotransduction, Micropatterning Research Interest and Objectives: Mechanotransduction in cellular level. Development of the 2D/3D Micro-patterned culture substrate. A cell in a tissue recognize physical properties of their circumstance, such as stiffness of extracellular matrices. To uncover such cellular mechanosensing system, we develop the 2D/3D micro-patterned culture substrate to regulate and measure cellular tractional forces. Then, application of these mechano-sensing mechanism and culture substrate to the regenerative-medicine are conducted. Dainichiseika-Donated Chair of Research Division for Innovative Biomaterials (Center for Biological Resources and Informatics) Assoc. Prof. Norihiko ITO E-mail Address: [email protected], [email protected] Key words: Regenerative medicine, Alternatives to animal testing Research Interests and Objectives: - We are exploring the regenerative medicine for the sensory organs. Our goal is to recover the function of the sensory organs by using the advanced stem cell technology. - Animal testing should be banned as soon as possible. We are developing alternatives to animal testing by using the technics for the regenerative medicine. Collaborative Organizations Center for Biological Resources and Informatics The Support Division provides education, training and safety management in the handling of radioisotopes and accelerators, the most advanced instruments and loca-tions for radioisotope research, recombinant DNA tech-nology, and experimental biology, and maintaining labora-tory animals and plants. Sections: Isotope Experiment, Gene Experiment, and Experimental Biology. The Research Division carries out leading bioinformatics research on proteins, DNA and RNA. Sections: Protein Informatics, Genome Informatics, RNA Informatics. Frontier Research Center This research center fosters the creation of new indus-tries based on technologies developed at Tokyo Tech. Activities such as the formation and promotion of collabo-rative research projects, technology transfer, and support for venture businesses in the field of biotechnology, information technology, material science and environ- mental technology nurture the industrial potential of our breakthroughs and talent. The Research Function for Bioscience and Biotechnology is one of the center's most important functions. 18 Suzukakedai Campus Map 3 Map J3 Bldg. 13,520m2 J3 Ask Foreign Student Office for further information: Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku Tokyo 152-8550, JAPAN Fax: 81-3-5734-3443 Tel: 81-3-5734-2304 URL: http://www.gakumu.titech.ac.jp/nyusi/prospectus/index_e.html 2013.4.1