Taishi Kotsuka

Postdoctoral researcher at University of California, Santa Barbara (Biological Control Lab)　　　　　　　　　　　
Email: tkotsuka at ucsb.edu

Research interests

・Molecular Communication ・Feedback Control ・Biomolecular systems

・Synthetic Biology ・Control Engineering ・Stochastic systems

Webpages

Taishi Kotsuka received the B.S in engineering from Keio University in 2018. By Double Degree Program, he received the M.S. degree in engineering from Keio University (Applied Physics and Physico-informatics) in 2021 and the M.S. degree in science from Technical University Munich (Physics Dept., Biophysics) in 2021, respectively. He received Ph.D. in engineering from Keio University (Applied Physics and Physico-informatics) in 2024. Currently, he is a postdoctoral scholar at University of California, Santa Barbara (Mechanical Engineering). His research interests lie in the integration of control engineering and synthetic biology. Especially he proposes control theory for the analysis and design of molecular communication systems composed of bacteria and molecular robots.

Career

March 2018 B.S. degree, Applied Physics and Physico-informatics, Keio University

Advisor : Prof. Takanori Uchiyama

March 2021 M.S. degree, Applied Physics and Physico-informatics, Keio University (Double Degree Program)

Advisor : Prof. Yutaka Hori

March 2021 M.S. degree, Biophysics, Physics, Technical University of Munich (Double Degree Program)

Advisor : Prof. Friedrich Simmel

March 2024 　　 Ph.D., Applied Physics and Physico-informatics, Keio University

Advisor : Prof. Yutaka Hori

April 2022 - March 2024　JSPS Research Fellowship for Young Scientists (DC2)

April in 2024 - Today Postdoctoral scholar, Mechanical Engineering, University of California, Santa Barbara

Advisor : Prof. Enoch Yeung

April in 2024 - Today JSPS Overseas Research Fellowship

Activity

Molecular Cybernetics（Molecular Robotics）Study group for young researchers - Steering Committee Member
- Sponsorship：Grant-in-Aid for Transformative Research Areas (A) "Molecular Cybernetics"
- Endorsement：The Society of Instrument and Control Engineers SANDI "Molecular Robotics"
The Society of Instrument and Control Engineers SANDI "Molecular Robotics" - Student Committee Member 2020

Award

Academic Award 2023 “Encouragement Award”, The Institute of Systems, Control and Information Engineers, March 2023.
SCI Student Presentation Award，66th SCI Research Conference, Kyoto, May 2022.
Young Researcher Encouragement Award，5th Molecular Robotics Annual Conference, Online, November 2021.

Peer-reviewed Journal Papers

T. Kotsuka, Y. Hori, "Stability analysis for large-scale multi-agent molecular communication systems," IEEE Transactions on NanoBioscience, vol. 23, No. 3, pp. 507-517, 2024. (10.1109/TNB.2024.3404592).
S. Kitada, T. Kotsuka, Y. Hori, "Analysis of Signal Distortion in Molecular Communication Channels Using Frequency Response," New Generation Computing, vol. 42, pp. 253-270, 2024 (Co-first author) (https://doi.org/10.1007/s00354-024-00258-1).
T. Kotsuka, Y. Hori, "A Control-theoretic Model for Bidirectional Molecular Communication Systems," IEEE Transactions on Molecular, Biological and Multi-Scale Communications, vol. 9, No. 3, pp. 274-285, 2023. (10.1109/TMBMC.2023.3290077)
T. Kotsuka, Y. Hori, "Spatial Frequency-Based Characterization of Disturbance Rejection in Molecular Communication Systems," IEEE Transactions on Molecular, Biological and Multi-Scale Communications, vol. 8, No. 1, pp. 36-43, 2022. (10.1109/TMBMC.2021.3083726)

Preprints

T. Kotsuka, E. Yeung, "Model Reduction of Multicellular Communication Systems via Singular Perturbation: Sender Receiver Systems," (arXiv), 2025.
T. Kotsuka, E. Yeung, "Controlling Peak Sharpness in Multimodal Biomolecular Systems via the Chemical Fokker-Planck Equation," (arXiv), 2025.
S. Kitada, T. Kotsuka, Y. Hori, "Analysis of Signal Distortion in Molecular Communication Channels Using Frequency Response," (arXiv), 2024.
T. Kotsuka, Y. Hori, "Stability analysis for large-scale multi-agent molecular communication systems," (arXiv),2023.
T. Kotsuka, Y. Hori, "Stability analysis for circulant structured multi-agent molecular communication systems," (arXiv),2023.
T. Kotsuka, Y. Hori, "A Control-theoretic model for bidirectional molecular communication systems," (arXiv),2022.

International Conferences

T. Kotsuka, E. Yeung, “A new computational approach for designing biomolecular reaction networks to shape the multi-modality of stationary populations of cell," The 12th Annual Winter q-bio, Hawaii, USA, February 2025 (Poster).
T. Kotsuka, E. Yeung, “Controlling Mode Placement of Multi-Modal Biomolecular Systems Based on Chemical Fokker Planck equation," Workshop on Biological Control Systems 2024, Online, November 2024 (Poster).
T. Kotsuka, Y. Hori, “Transfer function-based stability analysis for multi-agent molecular communication systems using a discrete Fourier transform matrix,” SICE Annual Conference 2023, Tsu, Japan, September 2023 (Poster).
S. Kitada, T. Kotsuka, Y. Hori, “Analysis of Signal Distortion in Molecular Communication Channel,” The 22nd IFAC World Congress, Yokohama, Japan, July 2023.
T. Kotsuka, Y. Hori, “Stability analysis for circulant structured multi-agent molecular communication systems,” The 7th Workshop on Molecular Communications, Erlangen, Germany, April 2023.
A. Nakajima, T. Yamamoto, T. Kotsuka, Y. Hori, "Model-based analysis and rapid prototyping of genetic circuits with decoy transcription factor binding sites", Proceedings of SICE Annual Conference, pp. 438-441, Kumamoto, Japan, 2022. (A. Nakajima was selected as the winner of the SICE Annual Conference Young Author's Award.)
T. Kotsuka, Y. Hori, "Frequency response of diffusion-based molecular communication channels in bounded environment," Proceedings of the 20th European Control Conference, pp. 327-332, London, UK, 2022. (doi.org/10.48550/arXiv.2203.13532)
S. Hara, T. Kotsuka, and Y. Hori, “Modeling and stability analysis for multi-agent molecular communication systems : a case study for two agents,” The SICE Annual Conference 2021, Online, 2021.
T. Kotsuka, Y. Hori, "Disturbance response analysis of cell-to-cell communication systems based on spatial frequency decomposition," IFAC-PapersOnLine (Proceedings of the IFAC Foundations of Systems Biology in Engineering), vol. 52, No. 26, pp. 65-69,Valencia, Spain, 2019. (doi:10.1016/j.ifacol.2019.12.237,bioRxiv)

Japanese Conference

小塚太資，堀豊，伝達関数に基づくマルチエージェント分子通信システムの安定性解析，第7回分子ロボティクス年次大会，Tokyo，March 2024．
北田祥一朗，小塚太資，堀豊，信号の歪みを抑制する分子通信路の設計法，第10回制御部門マルチシンポジウム，Kusatsu，March 2023．
小塚太資，堀豊，複数の分子ロボットによる分子通信システムのノイズ抑制解析，第6回分子ロボティクス年次大会，Sendai，November 2022.
小塚太資，堀豊，双方向型分子通信路のモデル化および周波数応答解析，第66回システム制御情報学会研究発表講演会，Kyoto，May 2022．
小塚太資，堀豊，拡散分子通信路の伝達関数を用いた通信距離による帯域制限の解析，第5回分子ロボティクス年次大会，Online，November 2021．
小塚太資，堀豊，空間周波数サブシステム分解に基づく細胞間分子通信システムの外乱応答解析，第 63回自動制御連合講演会論文集，pp. 373-377，Online，November 2020．

Talks

小塚太資，分子ロボット特有の通信システムの解析，ロボティクス・メカトロニクス講演会2022シンポジウム『 “いいかげん”を科学して未来を創るソフトロボット学3』，Sapporo，June 2022．