作村 諭一

所属 データ駆動型サイエンス創造センター データ駆動型サイエンス創造センター、バイオサイエンス領域 統合システム生物学分野
職位 教授
学位
研究室 バイオインフォマティクス部門、データ駆動型生物学
研究キーワード
システム生物学, 統計解析, 形態形成, シグナル伝達, 分子生物学, システム同定, 軸索誘導, 生物形態, 膜電位, ベイズ推定, 細胞形態, 数理生物, 発生, 分節化, 生物時計, 神経成長, 軸索伸長, Notch シグナル, シミュレーション, 体節, 分子時空間計測, Rhoファミリー低分子量Gタンパク質, 細胞運動, 推論問題, 非線型力学, システム神経生物学, Protein Interaction Nonlinear Dynamics, Brain Information
研究分野
ライフサイエンス / 生物物理学 / , 情報通信 / ソフトコンピューティング / , 情報通信 / 生命、健康、医療情報学 / , ライフサイエンス / システムゲノム科学 / , ライフサイエンス / 神経科学一般 / , ライフサイエンス / 神経科学一般 / , 情報通信 / 生命、健康、医療情報学 /
研究室概要
学術論文
"Vascular access dysfunction incidence among Japanese dialysis patients from NDB Open Data Japan ," Scientific Reports, vol.15, no.1, 23 Feb. 2025
SUZUKI Kenta, Kiyoshi Naemura, Yuichi Sakumura
[ doi:10.1038/s41598-025-91034-8 ]
"The Transmembrane Protein TMEM196 controls cell proliferation and determines the floor plate cell lineage.," Development, Growth and Differentiation, 18 Jan. 2025
Takuma Shinozuka, Yuichi Sakumura, Noriaki Sasai
[ doi:10.1111/dgd.12960 ]
"細胞の変形動態を複数の Rho GTPase 活性の統合から解読する," 日本生物物理学会誌, vol.64, no.5, 2024.10
国田勝行, 作村諭一
"On-Line Reoptimization of Mammalian Fed-Batch Culture Using a Nonlinear Model Predictive Controller ," New Generation Computing, 4 Nov. 2023
Tomoki Ohkubo, Yuichi Sakumura, Katsuyuki Kunida
"Bayesian traction force estimation using cell boundary-dependent force priors ," Biophysical Journal, 2023.11
Ryosuke Fujikawa, Chika Okimura, Satoshi Kozawa, Kazushi Ikeda, Naoyuki Inagaki, Yoshiaki Iwadate, Yuichi Sakumura
"Extracting quantitative relationships between cell motility and molecular activities (Analytical approaches and implications)," Journal of Biomechanical Science and Engineering, 4 Oct. 2023
Yuichi Sakumura, Katsuyuki Kunida
"A hybrid in silico/in-cell controller for microbial bioprocesses with process-model mismatch," Scientific Reports , vol.13, 6 Sep. 2023
Tomoki Ohkubo, Yuki Soma, Yuichi Sakumura, Taizo Hanai, Katsuyuki Kunida
[ doi:10.1038/s41598-023-40469-y ]
"Discrimination of volatile organic compounds using a sensor array via a rapid method based on linear discriminant analysis," Sensors and Actuators B: Chemical, vol.387, 7 Apr. 2023
Toshio Itoh, Yutaro Koyama, Yuichi Sakumura, Takafumi Akamatsu, Akihiro Tsuruta, Yoshitake Masud, Woosuck Shin
[ doi:10.1016/j.snb.2023.133803 ]
"Decoding cellular deformation from pseudo-simultaneously observed Rho GTPase activities," Cell Reports, vol.42, no.2, pp112071, 28 Feb. 2023
Katsuyuki Kunida, Nobuhiro Takagi, Kazuhiro Aoki, Kazushi Ikeda, Takeshi Nakamura, Yuichi Sakumura
"Analyses of actin dynamics, clutch coupling and traction force for growth cone advance," J. Vis. Exp. , vol.e63227, Oct. 2021
Minegishi, T, Fujikawa, R, Kastian, R.F, Sakumura, Y, Inagaki, N
"Basic proline-rich protein-mediated microtubules are essential for lobe growth and flattened cell geometry," Plant Physiology, vol.181, no.2, pp381-382, Oct. 2019
Jeh Haur Wong, Takehide Kato, Samuel Belteton, Rie Shimizu, Nene Kinoshita, Takumi Higaki, Yuichi Sakumura, Daniel B. Szymanski, Takashi Hashimoto
[ doi:10.1104/pp.19.00811 ]
"半導体式ガスセンサによる呼気分析と統計解析," 電気化学, vol.86, pp99-103, 2018.6
伊藤敏雄, 作村 諭一
"Computational Methods for Estimating Molecular System from Membrane Potential Recordings in Nerve Growth Cone," Scientific Reports, vol.8, no.4559, 14 Mar. 2018
Tatsuya Yamada, Makoto Nishiyama, Shigeyuki Oba, Henri Claver Jimbo, Kazushi Ikeda, Shin Ishii, Kyonsoo Hong, Yuichi Sakumura
[ NAISTレポジトリ ] [ doi:10.1038/s41598-018-22506-3 ]
"Sensing of substratum rigidity and directional migration by fast-crawling cells," PHYSICAL REVIEW E, vol.97, pp052401, 3 Mar. 2018
Chika Okimura, Yuichi Sakumura, Katsuya Shimabukuro, Yoshiaki Iwadate
[ NAISTレポジトリ ] [ doi:10.1103/physreve.97.052401 ]
"Diagnosis by volatile organic compounds in exhaled breath from lung cancer patients using support vector machine algorithm," Sensors, vol.17, no.2, 4 Feb. 2017
Yuichi Sakumura, Yutaro Koyama, Hiroaki Tokutake, Toyoaki Hida, Kazuo Sato, Toshio Itoh, Takafumi Akamatsu, Woosuck Shin
[ NAISTレポジトリ ] [ doi:10.3390/s17020287 ]
"Bayesian Cell Force Estimation Considering Force Directions," Sep. 2013
Satoshi Kozawa, Yuichi Sakumura, Michinori Toriyama, Naoyuki Inagaki, Kazushi Ikeda
"神経細胞が軸索の長さを検知する仕組みと神経細胞の対称性の破れ," 遺伝, vol.65, pp80-86, 2011.5
鳥山道則, 作村諭一, 稲垣直之
"Sprouty4, an FGF inhibitor, displays cyclic gene expression under the control of the notch segmentation clock in the mouse PSM.," PLoS ONE , vol.4, no.5, ppe5603, 19 May. 2009
Hayashi, S., Shimoda, T., Nakajima, M., Tsukada, Y., Sakumura, Y., Dale, J., Maroto, M., Kohno, K., Matsui, T., Bessho, Y.
"Stochastic control of spontaneous signal generation for gradient sensing in chemotaxis," Journal of Theoretical Biology, vol.255, no.2, pp259-266, Nov. 2008
Honda, N., Sakumura, Y., Ishii, S.
"Quantification of local morphodynamics and local GTPase activity by edge evolution tracking," PLoS Computational Biology, vol.4, no.11, ppe1000223, Nov. 2008
Tsukada, Y., Aoki, K., Sakumura, Y., Matsuda, M., Ishii, S.
"Shootin1: A protein involved in the organization of an asymmetric signal for neuronal polarization.," Journal of Cell Biology, vol.175, no.1, pp147-157, 9 Oct. 2006
Michinori Toriyama, Tadayuki Shimada, Ki Bum Kim, Mari Mitsuba, Eriko Nomura, Kazuhiro Katsuta, Yuichi Sakumura, Peter Roepstorff, Naoyuki Inagaki
"The role of short-term depression in sustained neural activity in the prefrontal cortex: A simulation study," Neural Networks, vol.19, no.8, pp1137-1152, Oct. 2006
Igarashi, Y., Sakumura, Y., Ishii, S.
"Shootin1: a protein involved in the organization of an asymmetric signal for neuronal polarization.," J. Cell Biol., vol.175, pp147-157, Oct. 2006
Toriyama. M, Shimada. T, Kim. K-B, Mitsuba. M, Nomura. E, Katsuta. K, Sakumura. Y, Roepstorff. P, Inagaki. N.
[ NAISTレポジトリ ] [ doi:10.1083/jcb.200604160 ]
"Stochastic resonance with differential code in feedforward network with intra-layer random connections," Neural Networks, vol.19, pp469-476, May. 2006
Sakumura, Y., Ishii, S.
"Local signaling with molecular diffusion as a decoder of Ca2+ signals in synaptic plasticity ," Molecular Systems Biology, vol.doi:10.1038/msb4100035, Dec. 2005
Honda, N., Sakumura, Y., Ishii, S.
"A molecular model for axon guidance based on crosstalk between Rho GTPases," Biopysical Journal, vol.89, no.2, pp812-822, Aug. 2005
Sakumura, Y., Tsukada, Y., Yamamoto, N., Ishii, S.
"Stochastic Resonance and Coincidence Detection in Single Neurons," Neural Processing Letters, vol.16, no.3, pp235-242, Apr. 2002
Yuichi Sakumura, Kazuyuki Aihara
"Approximating Markov Chain Model of the Hodgkin-Huxley Neuron," Trans of the Materials Research Society of Japan, vol.26, no.1, pp457-460, Nov. 2001
Yuichi Sakumura, Norio Konno, Kazuyuki Aihara
"Markov Chain Model Approximating the Hodgkin-Huxley Neuron," Artificial Neural Networks, Lecture Notes in Computer Science, vol.2130, pp1153-1160, Sep. 2001
Yuichi Sakumura, Norio Konno, Kazuyuki Aihara
"A Neuronal Time Window for Coincidence Detection," IEICE Transactions on Fundamentals, vol.E81-A, no.9, pp1818-1823, Apr. 1998
Yuichi Sakumura, Kazuyuki Aihara
受賞
"Best Student Award in 2007 International Conference on Neural Information Processing (ICONIP 2007)," International Conference on Neural Information Processing 2007, Nov. 2007
Yuki Tsukada
所属学協会
アジア太平洋神経回路学会
北米神経科学学会
電子情報通信学会ソサイエティ論文誌 編集委員会
Biophysical Society
日本物理学会
日本生物物理学会
日本神経科学学会
資料