Preprints/Submitted

Research articles

1. 29. Xin Yan, Goshi Ogita#, Shuji Ishihara, and Kaoru Sugimura#.
   Bayesian parameter inference for epithelial mechanics.
   Journal of Theoretical Biology 595: 111960 (2024) [Journal] [Topical issue] [bioRxiv]


2. 28. Estelle Gauquelin, Keisuke Kuromiya, Toshinori Namba, Keisuke Ikawa, Yasuyuki Fujita, Shuji Ishihara#, and Kaoru Sugimura#.
   Mechanical convergence in mixed populations of mammalian epithelial cells.
   European Physical Journal E 47: 21 (2024) [Journal] [bioRxiv]


3. 27. Keisuke Ikawa#, Souta Hiro, Shu Kondo, Shizue Ohsawa, and Kaoru Sugimura#.
   Coronin-1 promotes directional cell rearrangement in Drosophila wing epithelium.
   Cell Structure and Function 48: 251-257 (2023) [Journal] [bioRxiv]


4. 26. Keisuke Ikawa#, Shuji Ishihara, Yoichiro Tamori, and Kaoru Sugimura#.
   Attachment and detachment of cortical myosin regulates cell junction exchange during cell rearrangement in the Drosophila wing epithelium.
   Current Biology 33: 263-275.E4 (2023) [Journal] [bioRxiv] [プレスリリース] [Press release (EN)]


5. 25. Keisuke Kuromiya, Kana Aoki, Kojiro Ishibashi, Moe Yotabun, Miho Sekai, Nobuyuki Tanimura, Sayuri Iijima, Susumu Ishikawa, Tomoko Kamasaki, Yuki Akieda, Tohru Ishitani, Takashi Hayashi, Satoshi Toda, Koji Yokoyama, Chol Gyu Lee, Ippei Usami, Haruki Inoue, Estelle Gauquelin, Kaoru Sugimura, Naoya Hino, Yasuyuki Fujita.
   Calcium sparks enhance the cellular fluidity within epithelial layers to promote apical extrusion of transformed cells.
   Cell Reports 40: 111078 (2022) [Journal]


6. 24. Goshi Ogita, Takefumi Kondo, Keisuke Ikawa, Tadashi Uemura, Shuji Ishihara#, and Kaoru Sugimura#.
   Image-based parameter inference for epithelial mechanics.
   PLoS Computational Biology 18: e1010209 (2022) [Journal] [プレスリリース] [GitHub]


7. 23.Takeru Takagi, Tasuku Ueno, Keisuke Ikawa, Daisuke Asanuma, Yusuke Nomura, Shin-nosuke Uno, Toru Komatsu, Mako Kamiya, Kenjiro Hanaoka, Chika Okimura, Yoshiaki Iwadate, Kenzo Hirose, Tetsuo Nagano, Kaoru Sugimura, and Yasuteru Urano.
   Discovery of an F-actin-binding small molecule serving as a fluorescent probe and a scaffold for functional probes.
   Science Advances 7: eabg8585 (2021) [Journal] [プレスリリース]


8. 22. Keisuke Ikawa and Kaoru Sugimura.
   AIP1 and cofilin ensure a resistance to tissue tension and promote directional cell rearrangement.
   Nature Communications 9: 3295 (2018) [Journal] [プレスリリース]


9. 21. Masaki Arata, Kaoru Sugimura, and Tadashi Uemura.
   Difference in Dachsous levels between migrating cells coordinates the direction of collective cell migration.
   Developmental Cell 42: 479-497 (2017) [Journal] [プレスリリース]


10. 20. Shuji Ishihara, Philippe Marcq, and Kaoru Sugimura.
    From cells to tissue: A continuum model of epithelial mechanics.
    Physical Review E 96: 022418 (2017) [Journal] [arXiv]


11. 19. Yukitaka Ishimoto and Kaoru Sugimura.
    A mechanical model for diversified insect wing margin shapes.
    Journal of Theoretical Biology 427: 17-27 (2017) [Journal] [arXiv] [ResearchGate]


12. 18. Boris Guirao, Stéphane Rigaud, Floris Bosveld, Anaïs Bailles, Jesús López-Gay, Shuji Ishihara, Kaoru Sugimura, François Graner, and Yohanns Bellaïche.
    Unified quantitative characterization of epithelial tissue development.
    eLife 4; e08519 (2015) [Journal]


13. 17. Mihoko Kajita, Kaoru Sugimura, Atsuko Ohoka, Jemima Burden, Hitomi Suganuma, Masaya Ikegawa, Takashi Shimada, Tetsuya Kitamura, Masanobu Shindoh, Susumu Ishikawa, Sayaka Yamamoto, Sayaka Saitoh, Yuta Yako, Ryosuke Takahashi, Takaharu Okajima, Junichi Kikuta, Yumiko Maijima, Masaru Ishii, Masazumi Tada, and Yasuyuki Fujita.
    Filamin acts as a key regulator in epithelial defence against transformed cells.
    Nature Communications 5: 4428 (2014) [Journal]


14. 16. Kaoru Sugimura and Shuji Ishihara.
    The mechanical anisotropy in a tissue promotes ordering in hexagonal cell packing.
    Development 140: 4091-4101 (2013) [Journal] [In this issue]


15. 15. Kaoru Sugimura, Yohanns Bellaïche, François Graner, Philippe Marcq, and Shuji Ishihara.
    Robustness of force and stress inference in an epithelial tissue.
    IEEE Eng Med Biol Soc 2712-2715 (2013) [Article] [arXiv]


16. 14. Shuji Ishihara, Kaoru Sugimura, Simon J Cox, Isabelle Bonnet, Yohanns Bellaïche, and François Graner.
    Comparative study of non-invasive force and stress inference in tissue.
    European Physical Journal E 36: 45 (2013) [Journal] [topical issue on physical constraints on morphogenesis and evolution] [The cover article of the issue]


17. 13. Hiroko Sano, Prabhat S. Kunwar, Andrew D. Renault, Vitor Barbosa, Ivan B.N. Clark, Shuji Ishihara, Kaoru Sugimura, and Ruth Lehmann.
    The Drosophila actin regulator ENABLED regulates cell shape and orientation during gonad morphogenesis.
    PLoS One 7: e52649 (2012) [PubMed]


18. 12. Shuji Ishihara and Kaoru Sugimura.
    Bayesian inference of force dynamics during morphogenesis.
    Journal of Theoretical Biology 313: 201-211 (2012) [Journal] [GitHub]


19. 11. Shizue Ohsawa, Kaoru Sugimura, Kyoko Takino, and Tatsushi Igaki.
    Imaging cell competition in Drosophila imaginal discs.
    Methods in Enzymology 506: 407-413 (2012)　[PubMed]


20. 10. Yuichiro Nakajima, Erina Kuranaga, Kaoru Sugimura, Atsushi Miyawaki, and Masayuki Miura.
    Non-autonomous apoptosis is triggered by local cell cycle progression during epithelial replacement in Drosophila.
    Molecular and Cellular Biology 31: 2499-2512 (2011) [PubMed] [The cover article of the issue]
    Fucci stocks are available from DGRC (#109676, #109677, #109678, and #109679).


21. 9. Shizue Ohsawa, Kaoru Sugimura, Kyoko Takino, Tian Xu, Atsushi Miyawaki, and Tatsushi Igaki.
    Elimination of oncogenic neighbors by JNK-mediated engulfment in Drosophila.
    Developmental Cell 20: 315-328 (2011)　[PubMed] [The featured article of the issue]


22. 8. Daichi Sato, Kaoru Sugimura, Daisuke Satoh, and Tadashi Uemura.
    Crossveinless-c, the Drosophila homolog of tumor suppressor DLC1, regulates directional elongation of dendritic branches via down-regulating Rho1 activity.
    Genes to Cells 15: 485-500 (2010)　[PubMed]


23. 7. Kohei Shimono*, Kaoru Sugimura*#, Mineko Kengaku, Tadashi Uemura, and Atsushi Mochizuki#.
    Computational modeling of dendritic tiling by diffusible extracellular suppressor.
    Genes to Cells 15: 137-149 (2010)　[PubMed]


24. 6. Kohei Shimono, Azusa Fujimoto, Taiichi Tsuyama, Misato Yamamoto-Kochi, Motohiko Sato, Yukako Hattori, Kaoru Sugimura, Tadao Usui, Ken-ichi Kimura, and Tadashi Uemura.
    Multidendritic sensory neurons in the adult Drosophila abdomen: origins, dendritic morphology, and segment- and age-dependent programmed cell death.
    Neural Development 4: 37 (2009)　[PubMed]


25. 5. Kaoru Sugimura#, Kohei Shimono, Tadashi Uemura, and Atsushi Mochizuki#.
    Self-organizing mechanism for development of space-filling neuronal dendrites.
    PLoS Computational Biology 3: e212 (2007)　[PubMed]


26. 4. Yukako Hattori*, Kaoru Sugimura*, and Tadashi Uemura.
    Selective expression of Knot/Collier, a transcriptional regulator of the EBF/Olf-1 family, endows the Drosophila sensory system with neuronal class-specific elaborated dendritic patterns.
    Genes to Cells 12: 1011-1022 (2007)　[PubMed] [The cover article of the issue]


27. 3. Kaoru Sugimura, Daisuke Satoh, Patricia Estes, Stephen Crews, and Tadashi Uemura.
    Development of morphological diversity of dendrites in Drosophila by the BTB-zinc finger protein Abrupt.
    Neuron 43: 809-822 (2004)　[Journal]


28. 2. Arul Subramanian, Andreas Prokop, Misato Yamamoto, Kaoru Sugimura, Tadashi Uemura, Joerg Betschinger, Juergen A Knoblich, and Talia Volk.
    Shortstop recruits EB1/APC1 and promotes microtubule assembly at the muscle-tendon junction.
    Current Biology 13: 1086-1095 (2003)　[Journal]


29. 1. Kaoru Sugimura, Misato Yamamoto, Ryusuke Niwa, Daisuke Satoh, Satoshi Goto, Misako Taniguchi, Shigeo Hayashi, and Tadashi Uemura.
    Distinct developmental modes and lesion-induced reactions of dendrites of two classes of Drosophila sensory neurons.
    The Journal of Neuroscience 23: 3752-3760 (2003)　[Journal] [This Week in the Journal]

Reviews

1. 3. Kaoru Sugimura# and Tetsuhisa Otani#.
   Vertex remodeling during epithelial morphogenesis.
   Current Opinion in Cell Biology 91: 102427 (2024).　[Journal]


2. 2. Kaoru Sugimura, Pierre-François Lenne, François Graner.
   Measuring forces and stresses in situ in living tissues.
   Development 143: 186-196 (2016).　[Journal] [bioRxiv]

　
3. 1. Tadashi Uemura, and Kaoru Sugimura.
   Yoshiki Hotta's Challenge from 2004 onwards.
   Journal of Neurogenetics 26: 22-24 (2012)　[Journal]

Books

1. 3. 近藤　洋平，杉村　薫.
   多細胞集団の力学への機械学習アプローチ.
   小林徹也，杉村　薫，舟橋啓（編）実験医学増刊「機械学習を生命科学に使う！」第四章I-2 (2020) [羊土社]


2. 2. 杉村　薫，石原　秀至.
   組織の力・応力の定量生物学.
   小林徹也編(編) 定量生物学 第7章 (2018) [化学同人]


3. 1. 石原　秀至，杉村　薫.
   理論生物学の眺め方.
   望月敦史(編) 生命科学の新しい潮流「理論生物学」第1章第2節 (2011)　[共立出版]

Japanese reviews

1. 9. 杉村　薫.
   力を計測して生き物の形づくりを解き明かす
   高分子　70: 417 (2021) 　 [出版社]


2. 8. 石原　秀至，杉村　薫.
   組織変形の定量化手法と多階層連続体モデル
   生物物理　60: 37-43 (2020) 　 [JSTAGE]


3. 7. 杉村　薫，石原　秀至.
   細胞と組織をつなぐ新しいクラスの連続体モデル
   生体の科学　70: 333-338 (2019) 　 [出版社]


4. 6. 石原　秀至，杉村　薫.
   ベイズ推定でせまる形態形成の力学
   医学のあゆみ　253: 1135-1140 (2015) 　 [出版社]


5. 5. 杉村　薫，石原　秀至.
   組織応力の異方性が細胞の六角格子化を促進する
   生物物理　55: 210-211 (2015) 　 [JSTAGE]


6. 4. 杉村　薫，石原　秀至.
   個体発生の力学の数理モデル解析
   生体の科学　65: 470-471 (2014) 　 [出版社]


7. 3. 石原　秀至，杉村　薫.
   細胞のかたちから推定する“力”の場〜生き物の形づくりをベイズ統計で解き明かす
   実験医学 31: 1232-1238 (2013) （5月号特集 「生命システムを定量する！ ー未知なる現象の謎を解け！」）　[メディカルオンライン]


8. 2. 石原　秀至，杉村　薫.
   理論生物学研究の眺め方.
   A practical guide of theoretical biology for molecular biologists.
   蛋白質核酸酵素 54 (12月号): 1993-1999 (2009)　[PubMed]


9. 1. 杉村　薫，木村　宏史，上村　匡.
   樹状突起のパターンの多様性を支える機構の解明に向けて.
   Cellular and molecular mechanisms to achieve diversity of dendritic patterns.
   蛋白質核酸酵素 49 (2月号増刊号): 310-316 (2004)　[PubMed]

Misc.

1. 2. 杉村　薫.
   日本のアカデミアにおける女性活躍促進 男性の積極的行動で明日から変えられる
   生物物理 61: 124-127 (2021)　[JStage]


2. 1. 杉村　薫.
   生命とKonMari
   理学部ニュース 2021年5月号 (2021)　[東大理学部]