ACHIEVEMENT


*: Corresponding Author


Peer-Reviewed Original Papers


  1. Satoru Okuda*, Katsuhiko Sato, Tetsuya Hiraiwa, "Continuum modeling of non-conservative fluid membranefor simulating long-term cell dynamics," The European Physical Journal E 45: 69 (2022)

  2. Kentaro Kajiwara*, Ping-Kuan Chen, Yuichi Abe, Satoru Okuda, Shunsuke Kon, Jun Adachi, Takeshi Tomonaga, Yasuyuki Fujita, Masato Okada*, "Src activation in lipid rafts confers epithelial cells with invasive potential to escape from apical extrusion during cell competition," Current Biology 32 (16): 3460-3476.e6. (2022)

  3. Satoru Okuda*, Katsuhiko Sato*, "Polarized interfacial tension induces collective migration of cells, as a cluster, in a 3D tissue," Biophysical Journal 121 (10): 1856-1867 (2022)

  4. Dong Wang, Linhao Sun, Satoru Okuda, Daisuke Yamamoto, Mizuho Nakayama, Hiroko Oshima, Hideyuki Saito, Yuta Kouyama, Koshi Mimori, Toshio Ando, Shinji Watanabe, Masanobu Oshima*, "Nano-scale physical properties characteristic to metastatic intestinal cancer cells identified by high-speed scanning ion conductance microscope," Biomaterials (2021) DOI: 10.1016/j.biomaterials.2021.121256

  5. Igor Kondrychyn, Douglas J. Kelly, Núria Taberner Carretero, Akane Nomori, Kagayaki Kato, Jeronica Chong, Hiroyuki Nakajima, Satoru Okuda, Naoki Mochizuki, Li-Kun Phng*, "Marcksl1 modulates endothelial cell mechanoresponse to haemodynamic forces to control blood vessel shape and size," Nature Communications 11: 5476 (2020)

  6. Satoru Okuda*, Koichi Fujimoto, "A Mechanical Instability in Planar Epithelial Monolayers Leads to Cell Extrusion," Biophysical Journal 118(10): 2549-2560 (2020)

  7. Satoru Okuda*, Erina Kuranaga, Katsuhiko Sato*, "Apical junctional fluctuations lead to cell flow while maintaining epithelial integrity," Biophysical Journal 116 (6): 1159-1170 (2019)

  8. Satoru Okuda*, Nozomu Takata, Yuiko Hasegawa, Masako Kawada, Yasuhiro Inoue, Taiji Adachi, Yoshiki Sasai, Mototsugu Eiraku* "Strain-triggered mechanical feedback in self-organizing optic cup morphogenesis," Science Advances 4(11): eaau1354 (2018)

  9. Satoru Okuda*, Katsuyuki Unoki, Mototsugu Eiraku, Ken-ichi Tsubota*, "Three-dimensional deformation mode of multicellular epithelial tube under tension and compression tests," Journal of Biomechanical Science and Engineering 13(4): 17-00507 (2018)

  10. Satoru Okuda*, Takashi Miura, Yasuhiro Inoue, Taiji, Adachi, Mototsugu Eiraku, "Combining Turing and 3D vertex models reproduces autonomous multicellular morphogenesis with undulation, tubulation, and branching," Scientific Reports 8: 2386 (2018)

  11. Atsushi Hashimoto, Atsuki Nagao, Satoru Okuda*, "Topological graph description of multicellular dynamics based on vertex model," Journal of Theoretical Biology 437: 187-201 (2018)

  12. Shoko Ito, Satoru Okuda, Masako Abe, Mari Fujimoto, Tetsuo Onuki, Tamako Nishimura, Masatoshi Takeichi*, "Induced cortical tension restores functional cell junctions to adhesion-defective carcinoma cells," Nature Communications 8(1):1834 (2017)

  13. Satoru Okuda*, Katsuyuki Unoki, Mototsugu Eiraku, Ken-ichi Tsubota*, "Contractile actin belt and mesh structures provide the opposite dependence of epithelial stiffness on the spontaneous curvature of constituent cells," Development, Growth & Differentiation 59(5): 455-464 (2017)

  14. Yasuhiro Inoue*, Tadashi Watanabe, Satoru Okuda, Taiji Adachi, "Mechanical role of the spatial patterns of contractile cells in invagination of growing epithelial tissue," Development, Growth & Differentiation 59(5): 444-454 (2017)

  15. Satoru Okuda*, Mototsugu Eiraku, "Role of molecular turnover in dynamic deformation of a three-dimensional cellular membrane," Biomechanics and Modeling in Mechanobiology 16(5): 1805-1818 (2017)

  16. Yuiko Hasegawa, Nozomu Takata, Satoru Okuda, Masako Kawada, Mototsugu Eiraku*, Yoshiki Sasai, "Emergence of dorsal-ventral polarity in ES cell-derived retinal tissue," Development 143 (21): 3895-3906 (2016) DOI: 10.1242/dev.134601

  17. Satoru Okuda*, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, Yoshiki Sasai, "Modeling cell apoptosis for simulating three-dimensional multicellular morphogenesis based on a reversible network reconnection framework," Biomechanics and Modeling in Mechanobiology 15(4): 805-816 (2016)

  18. Satoru Okuda*, Yasuhiro Inoue*, Tadashi Watanabe, Taiji Adachi, "Coupling intercellular molecular signaling with multicellular deformation for simulating 3D tissue morphogenesis," Royal Society Interface Focus 5: 20140095 (2015)

  19. Satoru Okuda*, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, Yoshiki Sasai, "Vertex dynamics simulations of viscosity-dependent deformation during tissue morphogenesis," Biomechanics and Modeling in Mechanobiology 14(2), 413-425 (2015)

  20. Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi*, "Apical contractility in growing epithelium supports robust maintenance of smooth curvatures against cell-division-induced mechanical disturbance," Journal of Biomechanics 46(10): 1705-1713 (2013)

  21. Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi*, "Modeling cell proliferation for simulating three-dimensional tissue morphogenesis based on a reversible network reconnection framework," Biomechanics and Modeling in Mechanobiology 12(5): 987-996 (2013)

  22. Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi*, "Reversible network reconnection model for simulating large deformation during dynamic tissue morphogenesis," Biomechanics and Modeling in Mechanobiology 12(4): 627-644 (2013)

  23. Satoru Okuda*, Takashi Uneyama, Yasuhiro Inoue, Yuichi Masubuchi, Masaki Hojo, "Soft-core interaction between entanglement segments for primitive chain network simulations," Journal of the Society of Rheology, Japan 40: 21-30 (2012)

  24. Mototsugu Eiraku, Nozomu Takata, Hiroki Ishibashi, Masako Kawada, Eriko Sakakura, Satoru Okuda, Kiyotoshi Sekiguchi, Taiji Adachi, Yoshiki Sasai*, "Self-organizing optic-cup morphogenesis in three-dimensional culture," Nature 472: 51-56 (2011)

  25. Satoru Okuda, Yasuhiro Inoue*, Yuichi Masubuchi, Takashi Uneyama, Masaki Hojo, "Wall boundary model for primitive chain network simulations," Journal of Chemical Physics 130: 214907-214913 (2009)



Review Articles


  1. 奥田覚, "自己組織化によるオルガノイドの形作りと力学," 生物物理 60(1) (2020)

  2. Satoru Okuda*, Yasuhiro Inoue, Taiji Adachi, "Three-dimensional vertex model for simulating multicellular morphogenesis," Biophysics and Physicobiology 12: 13-20 (2015)

  3. 奥田覚*, 井上康博, 安達泰治, "多細胞の形作りを理解するための力学シミュレーション," 生物物理 54(1): 31-34 (2014)



Patents


  1. Satoru Okuda, Mototsugu Eiraku, Kuwahara Atsushi, "Region detecting method and region detecting device related to cell aggregate," Appeal/Trial number: WO 2017/09074 A1,25 Nov. 2016

    奥田覚,永樂元次,桑原篤, "細胞塊に関する領域検出方法及び領域検出装置," 出願番号:特願2015-229706,25 Nov. 2015 (in Japan)



Book Chapters


  1. 奥田覚 (2022). "脳構築における層構造形成の力学制御機構," Brain Science Review 2022 189-207, アドスリー

  2. 坪井有寿, 奥田覚, 藤本仰一 (2020). "細胞競合の力学的理解," 医学のあゆみ 274(5) 537-543, 医学書院

  3. 奥田覚 (2019). "1細胞統合モデルによる多細胞組織の形態予測," 生体の科学 70(4), 医学書院

  4. 奥田覚 (2019). "組織・器官の形成過程における細胞変形の原理とモデル化," Ed. 上野博夫,榎本篤,清川悦子, 病理と臨床 37(7), 文光堂

  5. 奥田覚, 永楽元次 (2019). "IV-7 三次元バーテックスモデルによる物理シミュレーションとオルガノイドへの応用," Ed. 佐藤俊朗,武部貴則,永樂元次, 実験医学 別冊 決定版 オルガノイド実験スタンダード, 羊土社

  6. 奥田覚, 永楽元次 (2017). "眼杯オルガノイド×Computational Biologyーin vitroとin silicoの相補的アプローチ," 実験医学 35(16): 2683-2688, 羊土社

  7. 奥田覚, 永楽元次 (2015). "器官をつくる―in vitro眼杯形成モデルと力学シミュレーションによる変形メカニズムの検証," 実験医学 33(3): 405-410, 羊土社

  8. 奥田覚, 井上康博, 安達泰治 (2014). "第4章4項2節 多細胞のダイナミクスに基づいた3次元組織形成シミュレーション," Ed. 田畑泰彦, MOOK 別冊 細胞の3次元組織化に不可欠な最先端材料技術, メディカルドゥ



Misc


  • 飯野亮太, 奥田覚, 島本勇太 (2021). "支部だより ~中部支部の研究室紹介~," 生物物理 61(2): 128-129, 一般社団法人 日本生物物理学会



Academic Presentation


2022

  • 奥田覚*, "多細胞ダイナミクスの汎用的計算手法: 3Dバーテックスモデルと非保存流体膜モデル," ソフトバイオ研究会2022, 秋田, 2022/11/16 - 18

  • Razib Datta SHUBHRA, "Fibronectin-mediated cell-ECM adhesion facilitates epithelial defense against cancer," 6th NanoLSI Symposium, Kanazawa, 2022/11/14 - 15(Poster)

  • Satoru Okuda*, "Mechanical plasticity of epithelium for progressing morphogenesis," New Frontiers in Developmental Biology – Celebrating the Diversity of Life, Strasbourg, 2022/11/7 - 10

  • Satoru Okuda, "Computational simulations of cell and tissue dynamics," Computational Biophysics of Atomic Force Microscopy A Lecture-based Workshop, Kanazawa, 2022/9/19 - 21

  • 寺西亜生, 奥田覚, "上皮組織の適応的な曲げ特性とその分子制御機構の解明," 日本機械学会 2022年度年次大会, 富山, 2022/9/11 - 14

  • 深町崇耶, 奥田覚, "3Dバーテックスモデルによる上皮層形成の力学機構の解明," 日本機械学会 2022年度年次大会, 富山, 2022/9/11 - 14

  • 奥田覚, "界面張力の不均一性・ゆらぎ・非対称性が引き起こす多細胞の集団運動," ゆらぎ界面研究会, Online, 2022/7/29

  • Satoru Okuda, "Single cell-based modeling of multicellular dynamics in three dimensions," the 9th World Congress of Biomechanics, Taipei, 2022/6/10 - 14

  • Satoru Okuda*, "Collective migration of cells as a sheet and cluster in 3D space," the 9th World Congress of Biomechanics, Taipei, 2022/6/10 - 14

  • 奥田覚, "極性化した界面張力が引き起こす多細胞のクラスター運動の力学機構," 日本機械学会 第34回バイオエンジニアリング講演会, 福岡, 2022/6/25 - 26

  • Shuya Fukamachi, Satoru Okuda, "Mechanics of Epithelial Stratification:Numerical Simulations Using a 3D Vertex Model," The 55th Annual Meeting of the Japanese Society of Developmental Biologists, Kanazawa, 2022/5/30 - 6/3 (Poster)

  • 奥田覚, "生き物の形作り~計算力学による創発現象の理解に向けて~," The 91st Scienc-ome, オンライン, 2022/3/30

  • 深津智隆, 坪田健一, 奥田覚, "3Dバーテックスモデルを用いた多細胞組織の粘弾性解析," 第32回 バイオフロンティア講演会, オンライン, 2022/1/12 – 13


2021

  • 奥田覚, "発生脳の数理モデリング:細胞分化・増殖の時間制御から空間構築への変換機構の解明を目指して," 新学術領域「脳構築における発生時計と場の連携」第6回領域班会議, 淡路, 2021/12/9 – 11

  • Aki Teranishi, Satoru Okuda, "Epithelial tissue responds plastically to applied 3D deformation while reorganizing actin cytoskeleton," The 11th Asian-Pacific Conference on Biomechanics, Online, 2021/12/2 - 5

  • Shuya Fukamachi, Satoru Okuda, "Numerical simulation of epithelial stratification using a three-dimensional vertex model," The 11th Asian-Pacific Conference on Biomechanics, Online, 2021/12/2 - 5

  • 奥田覚, "Emergent mechanical process in multicellular system and mechanical engineering approach ," 京都大学大学院教育コース「再生医療・臓器再建医学」コースリトリート, Online, 2021/10/9

  • 寺西亜生, 奥田覚, "力学刺激に対する三次元上皮組織の適応的な応答現象の観察," 日本機械学会2021年度年次大会, Online, 2021/9/5 - 8

  • 深町崇耶, 奥田覚, "三次元バーテックスモデルによる上皮多層化の力学解析," 日本機械学会2021年度年次大会, Online, 2021/9/5 - 8

  • 奥田覚, "三次元多細胞組織のアクティブな機械特性とその適応的な制御機構の理解に向けて," 日本機械学会第33回バイオエンジニアリング講演会, Online, 2021/6/25 - 26

  • 奥田覚, "幹細胞オルガノイドの形態形成における力学フィードバック機構," 第60回日本生体医工学会大会, Online, 2021/6/15 - 17

  • 奥田覚, "多細胞の三次元動態を1細胞から予測する汎用力学解析手法 ," 動物学会関東支部大会, Online, 2021/3/20

  • Satoru Okuda, "Strain-triggered mechanical feedback in self-organizing epithelial morphogenesis ," JSME-IU グローバルセミナーシリーズ2020 第2回学会賞受賞講演会, Online, 2021/3/19

  • 奥田覚, "力学シミュレーションに基づく幹細胞オルガノイド形成機構の理解 ," 第20回日本再生医療学会総会, Online, 2021/3/10


2020

  • Satoru Okuda, "Nano-scale mechanics of cell-cell boundary in epithelial formation," 4th NanoLSI Symposium, Online, 2020/11/26 - 27

  • Satoru Okuda, "Strain-triggered mechanical feedback in self-organizing epithelial morphogenesis," Seminer at Mechanobiology Institute, National University of Singapore, Online, 2020/11/25

  • 奥田覚, "多細胞の動きを自在に操る, " 第1回 先端生物物理学セミナー, Online,2020/10/26

  • Satoru Okuda, "Strain-triggered mechanical feedback in self-organizing epithelial morphogenesis, " 第58回日本生物物理学会年会, Online,2020/9/16 - 18

  • 奥田覚, "力学モデリングと幹細胞オルガノイドで紐解く三次元眼杯構造の自己組織化機構, " 反応拡散系と実験の融合3, 金沢,2020/2/19 - 21

  • 奥田覚, "多細胞組織の三次元力学動態を1細胞から予測する汎用数理モデル, " 多次元細胞計測ワークショップMulti-dimensional Cell Measurement Workshop, 埼玉,2020/1/27 - 28

  • Satoru Okuda, "Mechanical feedback regulation in optic-cup morphogenesis, " Studies from PRESTO project -Innovative technologyplatforms for integrated single cell analysis-, Okinawa,2020/1/23

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御, " さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第11回領域会議, 福岡,2019/1/21 - 22

  • Satoru Okuda,"Single cell-based mathematical modeling of 3D neuroepithelial formation,”New Frontier in Neuroscience 2020, Kanazawa, 2020/1/9 - 10


2019

  • 奥田覚,"細胞脱離を引き起こす上皮シートの力学不安定性に関する解析的理論," 日本機械学会第32回バイオエンジニアリング講演会, 金沢, 2019/12/20 - 21

  • 奥田覚,"1細胞統合モデリングによる三次元組織形成の予測," 第42回日本分子生物学会年会, 福岡, 2019/12/3 - 6

  • Satoru Okuda, "Collective cell migration in epithelial sheet," Joint UBI-NanoLSI Workshop, Kanazawa, 2019/11/19 - 21

  • 奥田覚, "多細胞動態を予測する汎用力学モデルと胚発生における力学フィードバック機構," 機能創成セミナー(大阪大学大学院基礎工学研究科機能創成専攻), 大阪, 2019/11/11

  • Satoru Okuda, "Versatile modeling of three-dimensional multi-cellular dynamics: in-silico and in-vitro combined approach to self-organizing morphogenesis," 3rd NanoLSI Symposium, Vancouver, 2019/8/8

  • 奥田覚,"汎用三次元バーテックスモデルによる形態形成の力学フィードバック機構の解明," 第30回バイオフロンティア講演会, 鹿児島, 2019/7/19 - 20

  • 奥田覚,"発生脳の数理モデリング:細胞分化・増殖の時間制御から空間構築への変換機構の解明を目指して," 脳構築 第4回領域班会議, 金沢, 2019/7/16 - 18

  • 奥田覚,"多細胞組織の三次元変形動態を1細胞から予測する汎用力学モデル," がん進展制御研究所異分野融合セミナー, 金沢, 2019/7/11

  • 奥田覚*,"多細胞組織の三次元変形動態を1細胞から予測する汎用力学モデル:発生・代謝・疾患への応用," ラボセミナー@東京大学澤井研究室, 金沢, 2019/6/24

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御, " さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第10回領域会議, 福岡,2019/6/3 - 4

  • 奥田覚,"多細胞組織の三次元変形動態を1細胞から予測する汎用力学モデル:発生・代謝・疾患への応用," 第7回金沢バイオエンジニアリング・コンポジット研究会, 金沢, 2019/5/18

  • 奥田覚,"眼杯組織形成における機械的ひずみ惹起性力学フィードバック機構," 第52回日本発生生物学会年会, 大阪, 2019/5/14 - 17

  • 奥田覚,"多細胞組織の三次元変形動態を1細胞から予測する汎用力学モデル," 脳神経医学セミナー@金沢大学, 金沢, 2019/4/16

  • 奥田覚,"上皮形態形成における機械的ひずみ惹起性力学フィードバック機構," 第4回メカノバイオロジー学会学術大会, 徳島, 2019/3/15

  • 奥田覚*, "多細胞の三次元動態を1細胞から解析する汎用力学モデル:発生・代謝・疾患への応用," 首都大学東京ナノ工学・メカノバイオロジー融合医工連携研究センターセミナー, 東京, 2019/2/14

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御, " さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第9回領域会議, 仙台,2019/1/15 - 17


2018

  • 奥田覚, "汎用三次元バーテックスモデル:発生・代謝・疾患における多細胞動態の1細胞解析," 日本機械学会 第31回バイオエンジニアリング講演会, 郡山, 2018/12/14

  • Satoru Okuda, "Strain-Triggered Mechanical Feedback in Self-Organizing Optic Cup Morphogenesis," GfE-JSDB Meeting, Schloss Reisenburg, Germany, 2018/10/12

  • 奥田覚*, "多細胞の三次元動態を1細胞から解析する汎用力学モデル:発生・代謝・疾患への応用," 金沢大学病理学I 第34回腫瘍病理セミナー, 金沢, 2018/10/4

  • Satoru Okuda*, "In-vitro & in-silico combined approach to controling 3D multicellular dynamics," Workshop on Multi-Cellular Engineered Living Systems, Chicago, 2018/8/3

  • Satoru Okuda*, Mototsugu Eiraku, "3D vertex modeling and computational simulations of multicellular dynamics," The 13th World Congress in Computational Mechanics, New York, 2018/7/27

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御, " さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第8回領域会議, 姫路, 2018/6/12 – 14

  • Satoru Okuda*, "Strain-triggered mechanical feedback in self-organizing optic-cup morphogenesis," Joint annual meeting of JSDB 51st and JSCB 70th, Tokyo, 2018/6/6

  • 奥田覚, "上皮組織における三次元多細胞動態の力学解析," ラボセミナー@東京大学大学院理学系研究科物理学専攻佐野研究室, 東京, 2018/3/6

  • Satoru Okuda, "Mechanical analysis of three-dimensional multicellular morphogenesis," FY 2017 RIKEN SPDR & FPR Presentation of Research Results, Wako, 2018/1/31 (Poster Award "Biology Prize")

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御, " さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第7回領域会議, 金沢, 2018/1/17 – 19


2017

  • Satoru Okuda*, "In-silico & in-vitro modeling of multicellular dynamics in development and disease," Seminar at EMBL Barcelona, 2017/12/14 – 15

  • Satoru Okuda*, "Versatile Model for Computational Simulation of Three-Dimensional Multicellular Dynamics," XXVI Congress of the International Society of Biomechanics 2017, Brisbane, 2017/7/23 – 27 (For the award lecture of Yamaguchi Medal)

  • Satoru Okuda*, "Mechanics in collective Cell Migration as Maintaining an epithelial Sheet Structure: 3D Vertex Model Approach," The 69th Annual Meeting of the Japan Society for Cell Biology, Sendai, 2017/6/13 – 15

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御," さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第6回領域会議, 岡山, 2017/6/1 – 3

  • 奥田覚, "1細胞動態に基づく立体組織構築の力学モデリングと応用," 新学術領域「脳構築における発生時計と場の連携」第1回領域班会議, 沼津, 2017/1/27 – 28

  • 奥田覚, "1細胞動態の統合モデリングによる三次元組織形成の予測制御," さきがけ「統合1細胞解析のための革新的技術基盤」研究領域第5回領域会議, 浜松, 2017/1/23 – 25

  • Satoru Okuda, Mototsugu Eiraku, “Versatile three-dimensional vertex model for analyzing multicellular morphogenesis,” JSME 29th Bioengineering Conference, 2A11, Nagoya, 2017/1/19 – 20


2016

  • Satoru Okuda*, Mototsugu Eiraku, "Mechanical regulatory mechanism of 3D multicellular dynamics during optic-cup morphogenesis," The 39th Annual Meeting of the Molecular biology Society of Japan, Yokohama, 2016/11/30 - 12/2

  • Satoru Okuda, Mototsugu Eiraku, "Mechanical regulatory mechanism of 3D multicellular dynamics during epithelial invagination," The 54th Annual Meeting of the Biophysical Society of Japan, 1Pos281, Tsukuba, 2016/11/25 - 27 (Poster)

  • 奥田覚, "4Dイメージベースモデリングによる多細胞力学動態の推定と予測," 4D細胞計測若手の会2016, 静岡, 2016/8/31 - 9/1 (Best Presentation Award)

  • 奥田覚, "三次元組織形成における1細胞力学動態の統合モデル化と多細胞らしさの探索," ラボセミナー@東京大学大学院理学系研究科物理学専攻佐野研究室, 東京, 2016/6/23

  • 奥田覚*, "三次元多細胞ダイナミクスの力学シミュレーション," 第57回HMMCセミナー(北海道大学電子科学研究所附属社会創造数学研究センター), 北海道, 2016/5/27

  • 奥田覚, "in vitro/in silico の立体組織構築," The 2nd RIKEN Quantitative and Developmental Biology Joint Workshop, 神戸, 2016/4/19

  • Satoru Okuda, Yasuhiro Inoue, Taiji Adachi, Mototsugu Eiraku, “Modeling cell apoptosis for simulating three-dimensional multicellular morphogenesis,” JSME 28th Bioengineering Conference, 1D16, Tokyo, 2016/1/9 – 10


2015

  • 奥田覚, "多細胞のダイナミクスを解析するvertex modelの概要と有用性," 第一回数理モデル研究会(新学術領域研究 植物発生ロジックの多元的開拓), 大阪, 2015/9/14

  • Satoru Okuda, Yasuhiro Inoue, Taiji Adachi, Yoshiki Sasai, Mototsugu Eiraku, "Versatile modeling of three-dimensional multicellular morphogenesis: application to apically-convex invagination during optic-cup formation," The 26th CDB meeting: Mechanistic Perspectives of Multicellular Organization, S4-1, Kobe, Japan, 2015/9/8 - 9

  • Satoru Okuda*, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, Yoshiki Sasai, "Vertex dynamics simulations of viscosity-dependent deformation during 3D multicellular morphogenesis," S8-1, 15th International Congress of Biorheology and 8th International Conference on Clinical Hemorheology Seoul, Korea, 2015/5/24 – 28

  • 奥田覚, "多細胞の立体組織形成ダイナミクスを理解するための力学シミュレーション," 第1021回生物科学セミナー(東京大学大学院理学系研究科生物科学専攻), 東京, 2015/1/28


2014

  • 奥田覚*, "立体組織形成における多細胞ダイナミクスの力学シミュレーション," 第4回イノバイオ研究会セミナー(イノバイオ研究会), 東京, 2014/12/10

  • Satoru Okuda, Yoshiki Sasai ,"Vertex Model for Simulating Mechanics-Based Multicellular Dynamics in 3D," The 62nd NIBB Conference "Force in Development" P23, NIBB, Japan, 2014/11/17 - 19 (Short Talk Selected from Posters)

  • 奥田覚, 笹井芳樹, "多細胞の形態形成ダイナミクスを理解するための力学シミュレーション", 戦略的研究展開事業「多階層をつなぐ 4D 細胞計測の次世代化による動態理解と操作」第 1回 「4D細胞計測 若手の会」, O13, 静岡, 2014/10/6 – 7

  • Satoru Okuda, Yoshiki Sasai, "Computational simulation for exploring biomechanics in 3D multicellular morphogenesis," CDB Retreat 2014, RT1-2 and P53-A, Unitopia Sasayama, 2014/9/29 - 30 (Gold Poster Award)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, "Vertex model for revealing mechanics in multicellular morphogenesis," The 52th Annual Meeting of the Biophysical Society of Japan, 2PT137, Sapporo, 2014/9/25 – 27 (Poster)

  • Satoru Okuda*, Yoshiki Sasai, "Vertex model for simulating multicellular dynamics during developmental morphogenesis", Joint Meeting of the 1st Africa International Biotechnology & Biomedical Conference and the 8th International Workshop on Approaches to Single-Cell Analysis WS3-1 Safari Park Hotel Nairobi Kenya, 2014/9/10 - 12

  • Satoru Okuda*, Yoshiki Sasai, "Coupling activator-inhibitor system with growth-induced multicellular morphodynamics in 3D", Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology Osaka International Convention Center Osaka Japan, 2014/7/28 - 8/1

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, and Yoshiki Sasai, "Vertex dynamics simulation of multicellular morphodynamics with visco-elastic-plastic large deformation," The 7th World Congress of Biomechanics, W284, Hynes Convention Center, Boston,US, 2014/7/6 - 11 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, and Yoshiki Sasai, "Vertex dynamics model for simulating multicellular tissue deformation during developmental morphogenesis," International Symposium of Mechanobiology 2014, S17-3, Okayama University, Okayama, Japan, 2014/5/20 - 23


2013

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Taiji Adachi, and Yoshiki Sasai, "Three-dimensional vertex model for biomechanical simulations of multicellular dynamics during tissue morphogenesis," The 1st Labex INFORM workshop: Quantitative Biology Signaling, Poster 20, p. 62, Institut des Etudes Scientifiques de Cargèse, Corsica France, 2013/10/21 - 26 (Poster)

  • 奥田覚*, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "三次元的な組織の形態形成における多細胞ダイナミクスの力学シミュレーション," The 77th Annual Meeting of the Botanical Society of Japan, 1aSI04, p. 93, Hokkaido University, Hokkaido, 2013/9/13 - 15

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Reversible network reconnection simulation of effects of apical contractility on curvature of growing epithelia," Mechanical Engineering Congress, 2013 Japan, S021011, Okayama University, Okayama, 2013/9/8 - 11

  • 奥田覚*, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "三次元バーテックスモデルによる組織形態形成の多細胞ダイナミクスシミュレーション," 熊本シンポジウム2013-神経発生を多角的に討論する会-, 熊本大学発生医学研究所, グリーンピア南阿蘇, Kumamoto, 2013/6/25 - 26

  • 笹井芳樹, 奥田覚, "組織変形の力学動態:計測とシミュレーションの統合に向けて," 4D細胞計測キックオフミーティング, Saitama, 2013/4/23

  • 奥田覚*, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "多細胞間の力学的相互作用に基づく三次元組織形成シミュレーション," 生命情報科学若手の会 第4回研究会, Aichi, 2013/3/1-3

  • 奥田覚, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "組織の形態形成過程における多細胞ダイナミクスの力学シミュレーション," 第3回 Vivid Workshop ―細胞機能と分子活性の多次元蛍光生体イメージング―, Ishikawa, 2013/2

  • 奥田覚, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "三次元バーテックスモデルに基づく多細胞組織形成過程の力学シミュレーション," 名古屋大学大学院医学系研究科細胞生物学分野にてセミナー, Nagoya, 2013/2

  • 奥田覚, 井上康博, 永樂元次, 笹井芳樹, 安達泰治, "多細胞組織の形態形成ダイナミクスシミュレーション," 5拠点ミーティング, PD3, Hyogom, 2013/2

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Modeling cell proliferation for simulating tissue morphogenesis using reversible network reconnection model," JSME 25th Bioengineering Conference, Japan, 2F16, Osaka, 2013/1


2012

  • 奥田覚, 井上康博, 永樂元次, 笹井芳樹, Taiji Adachi, "Computational Biomechanics in Complicated Deformation during Dynamic Tissue Morphogenesis," 平成24年度京都大学再生医科学研究所若手発表会, YO-2, YP-9, Kyoto, 2012/12 (Best Presentation Award)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, and Taiji Adachi, "Large deformation of multicellular tissues during morphogenesis using reversible network reconnection model," Exciting Biologies: Forces in Biology, Dublin, Irland, 2012/10

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Simulation of large deformation during tissue morphogenesis using reversible network reconnection model," The 50th Annual Meeting of the Biophysical Society of Japan, 1PT219, Aichi, 2012/9

  • Satoru Okuda*, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Reversible network reconnection model for simulating large deformations of multicellular tissues during morphogenesis," Japan Society for Mathematical Biology Annual Meeting 2012, Okayama, 2012/9/10 – 12

  • Satoru Okuda*, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, and Taiji Adachi, "Computational model for large deformations of multiple-cell aggregate during tissue morphogenesis," 10th World Congress of Computational Mechanics, 16818, Sao Paulo, Brazil, 2012/7/8 – 13

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, and Taiji Adachi, "Three-dimensional vertex model for morphogenesis of multiple-cell tissue with physical and topological consistency," CDB Symposium 2012: Quantitative Developmental Biology, P61, Kobe, Japan, 2012/3 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, and Taiji Adachi, "Three-dimensional vertex model for simulating large deformation of cell aggregates during tissue morphogenesis," International Symposium on Cellular Mechanobiology, PP-18, Kyoto, Japan, 2012/3 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Modeling cell division and growth in morphogenetic dynamics of tissue development," JSME 24th Bioengineering Conference, Japan, 8C43, Osaka, 2012/1


2011

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Computational biomechanics for large deformations of multiple-cell aggregates during tissue morphogenesis," 京都大学再生医科学研究所「再生医学・再生医療の先端融合的共同研究拠点」平成23年度学術講演会, 25, Kyoto, 2011/12 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, Taiji Adachi, “Mathematical insight into modeling morphological development of sheet-like multicellular tissue," Mechanica Engineering Congress, 2011 Japan, J025021, Tokyo, 2011/9

  • Satoru Okuda, Yasuhiro Inoue, Mototsugu Eiraku, Yoshiki Sasai, and Taiji Adachi, "Physical and geometrical improvements of three-dimensional vertex model for simulating morphogenetic dynamics of multicellular tissue in development," Exciting biology series: Biology at the interface, P44, Kobe, Japan, 2011/9 (Poster)


2010

  • 奥田覚, 井上康博, 北條正樹, 増渕雄一, 畝山多加志, "Simulation of Entangled Polymer Chain in Solid-Liquid Interface," 九州大学応用力学研究所研究集会報告21ME-S5ナノ複合材料等次世代複合材料の創製及び評価, Fukuoka, 2010/1

  • Satoru Okuda, Yasuhiro Inoue, Yuichi Masubuchi, Takashi Uneyama, Masaki Hojo, "Chain diffusivity of molten polymer confined between solid walls in primitive chain network simulations," The 57th Rheology Symposium, Japan, 1B06, Niigata, 2010/10


2009

  • Satoru Okuda, Yasuhiro Inoue, Yuichi Masubuchi, Takashi Uneyama, Masaki Hojo, ”Primitive chain network simulations: confinement effect of slit width between solid walls on entanglement of chains in polymer melt," JSME 22th Computational Mechanics Conference, 1037, Ishikawa, 2009/10

  • Satoru Okuda, Yasuhiro Inoue, Yuichi Masubuchi, Takashi Uneyama, Masaki Hojo, "Development of wall boundary model for primitive chain network simulations," The 81st Annual Meeting of The Society of Rheology, PO69, Madison, Wisconsin, USA, 2009/10 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Masaki Hojo, Yuichi Masubuchi, Takashi Uneyama, "Investigation of confinement effect of micro slit channels to molten polymer using primitive chain network model," The 14th Molecular dynamics Symposium, Society of Materials Science, Japan, O7, Ehime, 2009/5

  • Satoru Okuda, Yasuhiro Inoue, Yuichi Masubuchi, Takashi Uneyama, Masaki Hojo, "Investigation of the dynamics simulation of molten polymer confined between walls using primitive chain network model," The 36th Annual Meeting of the society of Rheology, Japan, P11, Kyoto, 2009/5 (Poster)


2008

  • Satoru Okuda, Yasuhiro Inoue,Masaki Hojo, Yuichi Masubuchi, "Proposal of a wall boundary condition for Primitive Chain Network simulations," JSME 21th Computational Mechanics Conference, 223, Okinawa, 2011/11

  • Satoru Okuda, Yasuhiro Inoue, Masaki Hojo, Yuichi Masubuchi, "Primitive chain network simulations of molten polymer confined between solid walls," The 56th Rheology Symposium, Japan, 1D07, Niigata, 2008/10

  • Satoru Okuda, Yasuhiro Inoue, Masaki Hojo, Yuichi Masubuchi, "A wall boundary condition for primitive chain network simulations", Meso-scale dynamics on interface 2008, Poster-18, Tokyo, Japan, 2008/3 (Poster)

  • Satoru Okuda, Yasuhiro Inoue, Masaki Hojo, Yuichi Masubuchi, "Primitive chain network simulation of confined polymer dynamics between walls," Rheology and Dynamics of Entangled Polymers, Kyoto, Japan, 2008/3 (Poster)


Public Presentation

  • Satoru Okuda,Satoshi Arai, Clemens Franz, "Have you thought about performing research in Kanazawa, Japan?," Study Abroad Fair, Knowledge Exchange for Innovation Center, Bangkok,Thailand, 2020/2/8

  • 奥田覚, "実験・物理・コンピュータシミュレーションを組み合わせた組織形成の研究," 平成26年度「高校生のための発生生物学実習講座」, 神戸, 2014/12/25–26


Award

  • CHEMINAS64 優秀研究賞, 山下 忠紘(慶應義塾大学),松澤 諒介,松尾 瑛,深町 崇耶,Philip Kollmannsberger,須藤 亮,奥田覚, Nov. (2022)

  • 2021年度日本機械学会バイオエンジニアリング部門瀬口賞, 奥田覚, Jun. (2022)

  • 2019年度日本機械学会賞(論文), 奥田覚,鵜木克幸,永樂元次,坪田健一, Apr. (2020)

  • さきがけ「統合1細胞解析のための革新的技術基盤」研究領域 ライジングスター賞,奥田覚, Jan. (2020)

  • 2018 JBSE Papers of the Year,Satoru Okuda, Katsuyuki Unoki, Mototsugu Eiraku, Ken-ichi Tsubota, Mar. (2019)

  • 2018 JBSE Graphics of the Year,Satoru Okuda, Katsuyuki Unoki, Mototsugu Eiraku,Ken-ichi Tsubota, Mar. (2019)

  • Young Scientist Award for Presentation at Joint annual meeting of JSDB 51st and JSCB 70th, Satoru Okuda, Jun. 6 (2018)

  • Poster Award "Biology Prize" at FY 2017 RIKEN SPDR & FPR Presentation of Research Results, Satoru Okuda, Jan. 31 (2018)

  • Yamaguchi Medal from Asian-Pacific Association for Biomechanics, Satoru Okuda, Jul. 27 (2017)

  • 日本機械学会奨励賞(研究), 奥田覚, Apr. 20 (2017)

  • 第3回 4D細胞計測プロジェクト 若手の会 プレセンテーション賞, 奥田覚, Aug. 31 (2016)

  • CDB Retreat Gold Award for poster presentation, Satoru Okuda, Sep. 3 (2014)

  • 京都大学再生医科学研究所若手発表会優秀賞, 奥田覚, Dec. 19 (2012)


Grant

  • 日本学術振興会 学術変革領域研究(A), 課題番号: -, 課題名: メカノケミカルフィードバックによる自律的秩序化原理の理論展開, 代表者: 柴田 達夫, 分担者: 奥田覚, 研究期間: 2022.10 –2027.3, 配分額(分担分): ¥ 867,775,000 (直接経費: ¥ 66,750,000, 間接経費: ¥ 20,025,000)

  • 日本学術振興会 基盤研究(C), 課題番号: 21KK0134, 課題名: 核内の粘弾的特性がNanogの転写調節領域の空間的ゆらぎを制御する, 代表者: 岡本和子, 分担者: 奥田覚, 研究期間: 2022.4 –2025.3, 配分額(分担分): ¥ 520,000 (直接経費: ¥ 400,000, 間接経費: ¥ 120,000)

  • 日本学術振興会 挑戦的研究(萌芽), 課題番号: -, 課題名: 器官形成において細胞が生じる力の動的ゆらぎ特性とその材料力学的な役割, 代表者: 奥田覚, 研究期間: 2022.4 –2024.3, 配分額: ¥ 6,500,000 (直接経費: ¥ 5,000,000, 間接経費: ¥ 1,500,000)

  • 日本学術振興会 国際共同研究加速基金(国際共同研究強化(B)), 課題番号: 21KK0134, 課題名: タンパク工学を用いた老化におけるシナプス周囲コラーゲンの役割の解明, 代表者: 長井 淳, 分担者: 奥田覚, 研究期間: 2021.10 –2025.3, 配分額(分担分): ¥ 325,000 (直接経費: ¥ 250,000, 間接経費: ¥ 75,000)

  • 日本医療研究開発機構 再生医療実現拠点ネットワークプログラム(幹細胞・再生医学イノベーション創出プログラム), 課題番号: -, 課題名: 立体組織の形成過程を最適化するモデルベース培養法の開発, 代表者: 奥田覚, 研究期間: 2021.6 –2024.3, 配分額: ¥ 42,900,000 (直接経費: ¥ 33,000,000, 間接経費: ¥ 9,900,000)

  • 日本学術振興会 基盤研究(B), 課題番号: 21H01209, 課題名: 三次元多細胞組織のアクティブな機械特性とその適応的な制御機構の解明, 代表者: 奥田覚, 研究期間: 2021.4 –2025.3, 配分額: ¥ 17,420,000 (直接経費: ¥ 13,400,000, 間接経費: ¥ 4,020,000)

  • 日本学術振興会 挑戦的研究(萌芽), 課題番号: 20K20958, 課題名: 器官形成において細胞が生じる力の動的ゆらぎ特性とその材料力学的な役割, 代表者: 奥田覚, 研究期間: 2020.4 –2022.3, 配分額: ¥ 6,370,000 (直接経費: ¥ 4,900,000, 間接経費: ¥ 1,470,000)

  • ブレインサイエンス振興財団 研究助成, 課題番号: -, 課題名: 脳構築における層構造形成の力学制御機構, 代表者: 奥田覚, 研究期間: 2020.4 –2021.3, 配分額: ¥ 800,000 (直接経費: ¥ 800,000)

  • ノバルティス科学振興財団 ノバルティス研究奨励金, 課題番号: -, 課題名: 網膜オルガノイド形成におけるアクチン細胞骨格の動的ゆらぎ特性とその役割の解明, 代表者: 奥田覚, 研究期間: 2020.4 –2021.3, 配分額: ¥ 1,000,000 (直接経費: ¥ 1,000,000)

  • 上原記念科学財団 研究奨励金, 課題番号: -, 課題名: 器官形成における細胞骨格の動的ゆらぎ特性とその役割, 代表者: 奥田覚, 研究期間: 2020.4 –2021.3, 配分額: ¥ 2,000,000 (直接経費: ¥ 2,000,000)

  • 科学技術振興機構 戦略的創造研究推進事業 CREST「多細胞間での時空間的相互作用の理解を目指した定量的解析基盤の創出」, 課題番号: JPMJCR1921, 課題名: 力学場と生化学場の相互作用の計測・操作と予測, 代表者: 今吉格, 分担者: 奥田覚, 磯部圭佑, 浜松フォトニクス, 研究期間: 2019.10 –2025.3, 配分額(分担分): ¥ 47,850,000 (直接経費: ¥ 44,500,000, 間接経費: ¥ 13,350,000)

  • 日本学術振興会 新学術領域研究(研究領域提案型)「脳構築における発生時計と場の連携」, 課題番号: 19H04777, 課題名: 脳発生の数理モデリング:細胞分化・増殖の時間制御から空間構築への変換機構の解明, 代表者: 奥田覚, 研究期間: 2019.4 –2021.3, 配分額: ¥ 4,290,000 (直接経費: ¥ 3,300,000, 間接経費: ¥ 990,000)

  • 日本学術振興会 基盤研究(B), 課題番号: 17KT0021, 課題名: 1細胞遺伝子発現・力学動態の統合アプローチによる1個体発生原理の構成的理解, 代表者: 近藤武史, 分担者: 奥田覚, 研究期間: 2017.4 –2020.3, 配分額(分担分): ¥ 4,550,000 (直接経費: ¥ 3,500,000, 間接経費: ¥ 1,050,000)

  • 日本学術振興会 基盤研究(B), 課題番号: 17H02939, 課題名: 上皮細胞の集団運動: 形態形成の基礎メカニズムの解明, 代表者: 佐藤勝彦, 分担者: 奥田覚,梅津大樹, 研究期間: 2017.4 –2020.3, 配分額(分担分): ¥ 2,925,000 (直接経費: ¥ 2,250,000, 間接経費: ¥ 675,000)

  • 科学技術振興機構 戦略的創造研究推進事業 さきがけ「統合1細胞解析のための革新的技術基盤」, 課題番号: JPMJPR16F3, 課題名: 1細胞動態の統合モデリングによる三次元組織形成の予測制御, 代表者: 奥田覚, 研究期間: 2016.10 –2020.3, 配分額: ¥ 63,050,000 (直接経費: ¥ 48,500,000, 間接経費: ¥ 14,550,000)

  • 理化学研究所 基礎科学特別研究員研究補助金, 課題名: 立体組織形成における多細胞力学場の動態解析, 代表者: 奥田覚, 研究期間: 2016.4 –2019.3, 配分額: ¥ 3,000,000 (直接経費: ¥ 3,000,000)

  • 日本学術振興会 挑戦的萌芽研究, 課題番号: 15K14534, 課題名: 立体イメージベースモデリングによる眼杯組織の動力学場推定, 代表者: 奥田覚, 研究期間: 2015.4 –2016.3, 配分額: ¥ 3,900,000 (直接経費: ¥ 3,000,000, 間接経費: ¥ 900,000)

  • 日本科学協会 笹川科学研究助成, 課題番号: 27-413, 課題名: 上皮組織形成における細胞極性化の動力学シミュレーション, 代表者: 奥田覚, 研究期間: 2015.4 –2016.3, 配分額: ¥ 500,000 (直接経費: ¥ 500,000)

  • 日本学術振興会 研究活動スタート支援, 課題番号: 25889070, 課題名: 器官形成における三次元多細胞力学場の解析, 代表者: 奥田覚, 研究期間: 2013.4 –2015.3, 配分額: ¥ 2,340,000 (直接経費: ¥ 1,800,000, 間接経費: ¥ 540,000)

  • 日本学術振興会 特別研究員研究奨励費, 課題番号: 10J01270, 課題名: 溶融高分子の内部において分子鎖が形成するからみあい構造のダイナミクス解析, 代表者: 奥田覚, 研究期間: 2010.4 –2013.3, 配分額: ¥ 2,100,000 (直接経費: ¥ 2,100,000)