Japanese / English

Our laboratory aims at providing new insights into life through bioinformatic approaches.

Technological innovations in the life science domain have enabled us to obtain and analyze massive amount of data that can unveil the underlying principles of life and its evolutionary history. While genomic data provide an overview of the history of life over hundreds of millions of years, other omic data illustrate how genomic sequences perform their functions about, for example, gene expression, regulation, and interactions. Pathway and network data represent diverse biological knowledge in a machine-understandable manner that permits large-scale computational analyses. Bioimaging and biologging data provide ways to quantitatively characterize phenotypes and behavior of organisms. Last but not least, metagenomic, ecogenomic, and environmental DNA data illustrate complex interactions between life and environments.

To understand life, it is fundamentally important to integrate and analyze these data comprehensively, not partially. In this context, utilizing deep understanding of both biology and informatics, we aim to uncover new concepts, insights, and laws behind life systems and ecosystems.

Research Topics

Genomic information reflects the long history from our ancient ancestors to the current day while also serving as the foundation of all biological activities. The analysis of genomic evolution is a scientific endeavor that aims at answering questions such as how life has evolved from the common ancestor, and how the genomes and the biological systems they encode have been developed.

Transcriptomic data tell us about the identity and expression level of genes that exist within genomes, and metagenomic and environmental DNA data provide a compositional view of complex ecosystems. Both are treasure troves of information. By analyzing the dynamics between these omic datasets over various environmental conditions, we aim to understand how life responds to environmental changes and what kind of interactions and inter-relationships exist between them.

Bioimaging data and biologging data are important resources for quantitatively analyzing phenotypes and behavior of organisms. In out laboratory, new information technologies for analyzing those types of data are being developed.

Other related research topics involve data visualization, text mining, and bibliographic analysis.

Publications

Refer to Publication List in Brief.

Members
April 2017
Wataru IWASAKI, Ph.D. [WebPage]
Associate Professor
Motomu MATSUI, Ph.D. [WebPage]
Research Associate
Seishiro AOKI, Ph.D. [WebPage]
Postdoctoral Fellow
Taiki ADACHI, Ph.D. [WebPage]
Postdoctoral Fellow (JSPS Postdoctoral Fellow)
Sohta ISHIKAWA, Ph.D. [WebPage]
Postdoctoral Fellow (JSPS Postdoctoral Fellow)
Salvatore COSENTINO, Ph.D. [WebPage]
Postdoctoral Fellow
Mizue ANDA, Ph.D.
Postdoctoral Fellow
Yoshinori NII
Ph.D. Candidate
Satoshi HIRAOKA [WebPage]
Ph.D. Candidate (JSPS Research Fellow)
Satoko FUKUDA
Ph.D. Candidate
Kazumori MISE
Ph.D. Candidate
Kaori MOTOKI
Ph.D. Candidate (JSPS Research Fellow)
Ken KUROKI
Graduate Student
Takumi BABA
Graduate Student
Tomoyuki MIKAMI
Graduate Student
Masashi YOSHINO
Graduate Student
Mitsuki USUI
Graduate Student
Takefumi YOSHIKAWA
Graduate Student
Momoka KOBAYASHI
Graduate Student
Kenya SAKKA
Graduate Student
Mio TAKOI
Graduate Student
Shunya TERAMURA
Graduate Student
Yuuki HAMAGUCHI
Graduate Student
Arnon PLIANCHAISUK
Graduate Foreign Research Student
Youhei KUMAGAI
Ph.D. Candidate (AORI, UTokyo)
Lab Alumni in Academia:
Shotaro HIRASE, Ph.D. (The University of Tokyo)
Haruka OZAKI, Ph.D. (RIKEN)
Tsukasa FUKUNAGA, Ph.D. (Waseda University)
Ching-Chia YANG, Ph.D. (National Agriculture and Food Research Organization)
Sira SRISWASDI, Ph.D. (Chulalongkorn University, Thai)
Former Visiting Researchers:
Akira IGUCHI, Ph.D. (Okinawa National College of Technology)
Mio TAKEUCHI, Ph.D. (AIST)
Joining Our Lab as a Graduate Student

We are accepting graduate students as faculty of the following departments in the University of Tokyo. We highly welcome those who majored bioinformatics and/or were involved in research projects related to bioinformatics during their undergraduate or master courses, and aim at earning a Ph.D. If you are interested in joining our lab, please email the Principal Investigator.

Notes: We have experience in accepting students from outside of Japan. Japanese language is not mandatory if you have enough English skills; however, a will to learn Japanese would be necessary because it makes you enjoy Japan more and many optional classes are held in Japanese. As the University of Tokyo provides Japanese language classes, we usually encourage colleagues from abroad to take them. Also, we highly encourage international students to obtain scholarships because of financial support and credit for life in Japan. The best one would be Ministry of Education, Culture, Sports, Science and Technology (Monbukagakusho or MEXT) Scholarship from the Japanese Government. Please consult with your local Japan Embassy for the selection information.

Joining Our Lab as a Postdoctoral Fellow

If you are interested in pursuing research in our group, please email the Principal Investigator first. Information on our post-doc position availability may be posted in JREC-IN Portal, or we might have an open position even if there is no posted information. In addition, we may help you obtain fellowships such as Postdoctoral Fellowships for Overseas Researchers, Japan Society for the Promotion of Science and Human Frontier Science Program Postdoctoral Fellowships.

Notes: We have experience in accepting Postdoctoral Fellows from outside of Japan. Japanese language is not mandatory if you have enough English skills; however, to enjoy life in Japan, a will to learn Japanese to some extent would be necessary. As the University of Tokyo provides Japanese language classes, we usually encourage colleagues from abroad to take them.

Affiliation in the University of Tokyo
The University of Tokyo
/ School of Science / Department of Biological Sciences & Department of Bioinformatics and Systems Biology
/ Graduate School of Frontier Sciences / Department of Computational Biology and Medical Sciences
/ Atmosphere and Ocean Research Institute / Center for Earth Surface System Dynamics / Genetic Research Section
Access to the Laboratory
Faculty of Science Building 3, the University of Tokyo, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032, JAPAN
Access Map to Hongo Campus (PDF)
Faculty of Science Bldg 3 in Hongo Campus / Faculty of Science Bldg 3 on Google Maps (35.7153N, 139.7653E)
*About 6 minutes walk from Exit 1, Nezu Station, Chiyoda Line, Tokyo Metro Subway.
Photos