Laboratory of Physical Chemistry for Life Science

Sanyo-Onoda City University/Tokyo University of Science, Yamaguchi


NEW PAPER: Yuta Tokuoka, Takahiro G. Yamada, Daisuke Mashiko, Zenki Ikeda, Noriko F. Hiroi, Tetsuya J. Kobayashi, Kazuo Yamagata & Akira Funahashi. " 3D convolutional neural networks-based segmentation to acquire quantitative criteria of the nucleus during mouse embryogenesis." npj systems biology and applications 2020, 6, 32. published 20 October 2020

NEW PAPER: Yamada TG, Hiki Y, Hiroi NF, Shagimardanova E, Gusev O, Cornette R, et al. (2020) " Identification of a master transcription factor and a regulatory mechanism for desiccation tolerance in the anhydrobiotic cell line Pv11." PLoS ONE 15(3): e0230218. published March 19th, 2020

Press Release March 23, 2020

HEALTH & BEAUTY EXP March 23, 2020

NEW BOOK: Translation Supervised by Akira Funahashi "Kazu de Toraeru Saibou Seibutsu gaku (Cell Biology by the Numbers, translated into Japanese)." ISBN 13 : 9784758121064 , Yodosha, published March 13, 2020

NEW PAPER: Tsuyoshi Iwasaki, Ryo Takiguchi, Takumi Hiraiwa, Takahiro G. Yamada, Kazuto Yamazaki, Noriko Hiroi, Akira Funahashi " Neural differentiation dynamics controlled by multiple feedback loop motifs in a comprehensive molecular interaction network." Processes 8(2), 166. acceppted Jan 26, 2020; published Feb 2, 2020

NEW PAPER: Maya Ooka, Yuta Tokuoka, Shori Nishimoto, Noriko F Hiroi, Takahiro G Yamada, Akira Funahashi. " Deep Learning for Non-Invasive Determination of the Differentiation Status of Human Neuronal Cells by Using Phase-Contrast Photomicrographs." Applied Sciences 9(24), 5503, Nov 26 2019

NEW PAPER: Kaito Ii, Kota Mashimo, Mitsunori Ozeki, Takahiro G Yamada, Noriko F Hiroi and Akira Funahashi. "XitoSBML: a modeling tool for creating spatial SBML models from microscopic images." Frontiers in Genetics, Systems Biology September 25, 2019 accepted, October 22, 2019 published

NEW PAPER: Akira Funahashi, Yuichiro Nakai, and Noriko Hiroi. "Development of 3D imaging system with electorical focus tunable lens" Zikken Igaku(Experimental Medicine) volume 37, No. 18, in the featured collection of Functional extension of microscopes DIY. Oct 18, 2019 published (in Japanese, a review article); publisher Yodosha

NEW PAPER: Nishimoto S, Tokuoka Y, Yamada TG, Hiroi NF, Funahashi A. "Predicting the future direction of cell movement with convolutional neural networks." PLoS ONE 14(9): e0221245. September 4, 2019

Press Release Sep. 5th, 2019

Daily Pharmaceutical Industry News Sep. 5th, 2019

Ube Nippo Oct. 17th, 2019

NEW PAPER: Hiraiwa T, Yamada TG, Miki N, Funahashi A and Hiroi N. "Activation of cell migration via morphological changes in focal adhesions depends on shear stress in MYCN-amplified neuroblastoma cells." Journal of the Royal Society Interface accepted. Feb 12th, 2019; published on line on Mar 6th

NEW PAPER: Noriko Hiroi et al. "Temperature change the colour of light - in a small world of a living cell -." Science Forum volume 409, pages 30-35. Feb 2019 published (in Japanese, a review article); publisher Tokyo University of Science

NEW PAPER: Yamada TG, Suetsugu Y, Deviatiiarov R, Gusev O, Cornette R, Nesmelov A, Hiroi N, Kikawada T and Funahashi A. "Transcriptome analysis of the anhydrobiotic cell line Pv11 infers the mechanism of desiccation tolerance and recovery." Scientific Reports volume 8, 17941 Dec. 19th, 2018 published.

Press Release Dec. 19th, 2018

Nikkei Newsletter Dec. 19th, 2018

NEW PAPER: Hiraiwa T, Nakai Y, Yamada TG, Tanimoto R, Kimura H, Matsumoto Y, Miki N, Hiroi N and Funahashi A. "Quantitative analysis of sensitivity to Wnt3a gradient in determination of the pole-to-pole axis of mitotic cells by using a microfluidic device." FEBS Open Bio Volume 8, Issue 12, Pages 1920-1935. Sep. 4th, 2018 accepted; Sep. 16th, 2018 first published

What We Do

We investigate How is life in the way of Quantitative biology and Systems biology to answer What can make a system lifelike? It is another expression of What is life for us.


We develop/fabricate/use microfluidic device.

Intracellular Temperature Detection

We use Qdots, modified GFP, IR laser to control cellular level temperature.

Image Processing

We love optics, taking bioimages, and analyse them.

Evolution & Adaptation

We use model bacteria, which turn over quickly, to investigate evolution and adaptation.

Network Analyses

We build and analyse biological molecular networks.

Lab Members

Please visit personal page & take a contact directly.

Noriko Hiroi

Professor; Visiting Professor of Keio University, Department of Biosciences and Informatics

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Working together for specific research projects.

Systems Biology Laboratory, Keio University

Akira Funahashi, PI; Associate Professor

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Takahiro G. Yamada, Research Associate

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Yuta Kurashina, Tokyo Institute of Technology

Yuta Kurashina, Assistant Professor

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