Journal Papers

Here we have the most recent publication lists. More a complete list is available from here.

Takato Chiba, Taiki Matsunaga, Tetsuya Gokan, Andre Antezana, Rinya Tajima, and Noriko F. Hiroi. " FPGA-Driven Nonlinear Analogue Networks for Deterministic Machine Learning. " Computers and Their Applications (Springer Nature) accepted Jan 26 2026 in press

Anna Niarakis, Gary An, Luiz Ladeira, Noriko F Hiroi, Athina Papadopoulou, Francis P Crawley, Niloofar Nikaein, Laurence Calzone, Eirini Tsirvouli, Hasan Balci, Marina Esteban Medina, Lorenzo Veschini, Ozan Ozisik, Francesco Messina, Malvina Marku, Van Du T Tran, Arnau Montagud, Nikola Schlosserova, Yashwanth Subbannayya, Martina Kutmon, Michael L Blinov, Rahuman S Malik Sheriff, Robert Phair, Peter Hunter, Kristin Reiche, Jasmin Fisher, Liesbet Geris, Yaron Ilan, James A Glazier, Philippe Moingeon, Reinhard Laubenbacher. " Building Immune Digital Twins: An International and Transdisciplinary Community Effort." ImmunoInformatics 100060, Sep 16 2025 published

Koya Takahashi, Kaito Zama and Noriko F. Hiroi. " Ship trajectory prediction using AIS data with TransFormer-based AI." CAI2024 acceptted March 25 2024

Anna Niarakis, Marek Ostaszewski, Alexander Mazein, Martina Kutmon, Marc E Gillespie, Akira Funahashi, Marcio Luis Acencio, Karsten Klein, Noriko F Hiroi, et al.
Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches. (2024)
Frontiers in Immunology 14, 1282859. Frontiers

Shohei Tada, Yoshitaka Yamazaki, Kazunori Yamamoto, Ken Fujii, Takahiro G Yamada, Noriko F Hiroi, Akatsuki Kimura, Akira Funahashi.
Switching from weak to strong cortical attachment of microtubules accounts for the transition from nuclear centration to spindle elongation in metazoans. (2024)
Heliyon 10, e25494. Cell Press

RJ Nakatani, M Itabashi, TG Yamada, NF Hiroi, A Funahashi.
Intercellular interaction mechanisms promote diversity in intracellular ATP concentration in Escherichia coli populations. (2022)
Scientific Reports 12, 17946. Springer Nature

Takayuki Nakamura, Joe Sakamoto, Kohki Okabe, Atsushi Taniguchi, Takahiro G. Yamada, Shigenori Nonaka, Yasuhiro Kamei, Akira Funahashi, Makoto Tominaga, Noriko F. Hiroi.
Temperature elevation detection in migrating cells. (2022)
Optics Continuum 1,5; 1085-1097. OPTICA Publishing Group

Marek Ostaszewski, Anna Niarakis, Alexander Mazein, et al.
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms. (2021)
Mol Syst Biol 17,10; e10387. EMBO press

R Yamanaka, Y Shindo, K Hotta, N Hiroi, K Oka
Cellular thermogenesis compensates environmental temperature fluctuations for maintaining intracellular temperature. (2020)
Biochemical and Biophysical Research Communications 533,1; 70-76. Academic Press

Yuta Tokuoka, Takahiro G. Yamada, Daisuke Mashiko, Zenki Ikeda, Noriko F. Hiroi, Tetsuya J. Kobayashi, Kazuo Yamagata and Akira Funahashi.
3D convolutional neural networks-based segmentation to acquire quantitative criteria of the nucleus during mouse embryogenesis. (2020)
npj systems biology and applications 6,12. Springer Nature and the Systems Biology Institute

Takahiro G Yamada, Yusuke Hiki, Noriko F Hiroi, Elena Shagimardanova, Oleg Gusev, Richard Cornette, Takahiro Kikawada, Akira Funahashi.
Identification of a master transcription factor and a regulatory mechanism for desiccation tolerance in the anhydrobiotic cell line Pv11. (2020)
PloS one 15,3; e0230218. Public Library of Science

Tsuyoshi Iwasaki, Ryo Takiguchi, Takumi Hiraiwa, Takahiro G Yamada, Kazuto Yamazaki, Noriko F Hiroi, Akira Funahashi.
Neural differentiation dynamics controlled by multiple feedback loops in a comprehensive molecular interaction network. (2020)
Processes 8,2; 166. MDPI

Talks & Conference Papers

NF Hiroi.
FPGA-Driven Nonlinear Analogue Networks for Deterministic Machine Learning. (2026/3/25)
41st International Conference on Computers and Their Applications (CATA2026), March 25th, 2026 at Honoluliu, Hawaii, USA

NF Hiroi.
High-speed machine learning by an onboard nonlinear analogue networks with reconfigurable input mechanisms. (2026/3/17)
The 73rd JSAP Spring Meeting 2026, March 17th, 2026 at Institute of Science Tokyo, Japan

K Takahashi and NF Hiroi.
Application of Transformer for complex tracking problem of mesoscopic objects. (2023/12/13)
Cell Dynamics And Chromosomal Stability Workshop, 12:00 to 4:30 p.m., December 13th, 2023 at Queen Mary University of London, UK

K Narita, S Nashizaki, M Iwashita, Y Sakai, H Urushibara, and NF Hiroi.
Classification of Human microexpressions using CNN trained on images thresholded by Galvanic Skin Response. (2023/8/7)
STATPYS28, Topic 8: Interdisciplinary and complex systems, Mon. Aug 7, 2023 3:00 PM - 5:00 PM Classroom 213 (#213 in Building 2 of the School of Engineering, 1F) chair:Noriko F Hiroi, Guido Caldarelli

Takayuki Nakamura, Takaya Saito, Ryuichi Tanimoto, Takahiro Yamada, Akira Funahashi, Atsushi Taniguchi, Shigenori Nonaka, Joe Sakamoto, Yasuhiro Kamei, Makoto Tominaga, Kohki Okabe, Yuki Yanase, Hiroko Kishi, Noriko F Hiroi.
Control and measurement of nano/micro-space temperature that changes cellular behavior. (2021/8/26)
JSAP-OSA Joint Symposia 10p_N404_14. Optical Society of America