小寺正明

Ph.D Science, Associate Professor at Tokyo Institute of Technology, Japan.
Laboratory of Molecular and Cellular Assembly (Itoh & Kotera Laboratory)Bioregulation SciencesDepartment of Biological InformationGraduate School of Bioscience and BiotechnologyTokyo Institute of Technology.

E-mail: maskot <at> bio <dot> titech <dot> ac <dot> jp

Summary

Omics studies are becoming increasingly important in life sciences to collect and analyze comprehensive biomolecular data. Information technologies are requisite to deal with the vast amount of omics data and to discover the underlying biological rules. To date, however, the challenging issue remains in integrating two kinds of omics, i.e., gene-related omics (genomics, transcriptomics and proteomics) and chemical-related omics (metabolomics and glycomics).

We focus on the analyses of biochemical interactions as the following two perspectives:

1. Integration of genomic and chemical information on metabolic pathways. Recent development of metabolomics studies unveiled the increasing number of chemical compound for which the metabolic pathways are not known yet. We research on the automated method to predict and analyze such metabolic pathways and to link the genomic information.

2. Integration of genomic and chemical information on inter-species interaction. The relationship between insects and edible plants is mediated by a variety of chemical compounds produced by the plants and the receptor proteins in the insects. We research on the fundamental infrastructure to computationally analyze such interactions in the view of systems biology.

Interests in

My principal research interests lie in the field of bioinformatics and cheminformatics, with a concentration on enzyme proteins and reactions. I am currently working on the prediction of metabolic pathways from metabolomic data through the effective methods to automatically extract the building block substructures of metabolites. My future research plans are to further investigate possible routes for the biosynthesis/degradation of pharmaceutical or toxic compounds. 

I have a particular expertise and interest in information processing and intelligence sharing on biology, 
chemical bioinformatics, enzyme reactions, drug metabolism, xenobiotic degradation, phytochemical compounds, comparative genomics, microarray analysis, playing GO and drinking whiskey.

Skills

KEGG database, Metabolic network analysis, Bioinformatics, Cheminformatics, Molecular Biology, Biochemistry, Enzymology, Organic Chemistry, Ruby, MySQL, CGI, HTML, XML, Linux, Mac OS X, Lecture for graduate students, Supervision of graduate students, Chess player, Go player, Whiskey lover

Certifications

  • Ph.D.Science (Kyoto University), 2005 (H17) Mar 23
  • Class I Information Technology Engineer, 1997 (H9) Jul 08
  • Class II Information Technology Engineer, 1996 (H8) Jun 06

Membership

Education and Carrer

2014 (H26) Feb 01 - :Associate Professor, Ph.D.
Laboratory of Molecular and Cellular Assembly (Takehiko Itoh Laboratory),
2012 (H24) Apr 01 - 2014 (H26) Jan 31:Assistant Professor, Ph.D.
Laboratory of Chemical Life Science (Susumu Goto Laboratory),
2011 (H23) Apr 01 - 2012 (H24) Mar 31:Assistant Professor, Ph.D.
Laboratory of Chemical Life Science (Kanehisa-Goto Laboratory),
2008 (H20) Aug 01 - 2011 (H23) Mar 31:Assistant Professor, Ph.D.
Bioknowledge Systems Laboratory (Minoru Kanehisa Laboratory),
2005 (H17) Apr 01 - 2008 (H20) Jul 31:Ph.D. Research Fellow
Laboratory of Neurochemistry, Enzymology and Systems Biology (Keith Tipton Laboratory)
School of Biochemistry and ImmunologyFaculty of Engineering, Mathematics and ScienceTrinity College Dublin, IRELAND.
2004 (H16) Apr 01 - 2005 (H17) Mar 31:Associate Instructor
Bioknowledge Systems Laboratory (Minoru Kanehisa Laboratory)
Bioinformatics CentreInstitute for Chemical ResearchKyoto University.
2001 (H13) Apr 01 - 2004 (H16) Mar 31:Graduate student (Ph.D course)
Bioknowledge Systems Laboratory (Minoru Kanehisa Laboratory)
Department of BiophysicsDivision of Biological ScienceGraduate School of ScienceKyoto University.
1999 (H11) Apr 01 - 2001 (H13) Mar 31:Graduate student (Master course)
Laboratory of Plant Physiology (Katsura Izui Laboratory), 
Department of Responses to Environmental Signals and StressesDivision of Integrated Life ScienceGraduate School of BiostudiesKyoto University.
1995 (H7) Apr 01 - 1999 (H11) Mar 31:Undergraduate student
Graduation thesis in: Bio-Organic Chemistry Laboratory (Hitoshi Tamiaki Laboratory)
Department of Bioscience and BiotechnologySection of Applied ChemistryThe Institute of Science and EngineeringRitsumeikan University.