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論文・参考文献

2019年


Fukushima, S., Matsuoka, S. and Ueda, M. (2019)
 Excitable dynamics of Ras triggers spontaneous symmetry breaking of PIP3 signaling in motile cells
 Journal of Cell Science 132(5), pii: jcs224121. (doi: 10.1242/jcs.224121)


Hashimura, H., Morimoto, Y. V., Yasui, M. and Ueda, M. (2018).
  Collective cell migration of Dictyostelium without cAMP oscillations at multicellular stages
 Communications Biology 2, Article number: 34. (doi: 10.1038/s42003-018-0273-6)

2018年

       

Tanabe, Y., Kamimura, Y., and Ueda, M. (2018).
 Parallel signaling pathways regulate excitable dynamics differently for pseudopod formation in eukaryotic chemotaxis
 Journal of Cell Science. 131: jcs214775. (doi: 10.1242/jcs.214775)


Miyanaga, Y., Kamimura, Y., Kuwayama, H., Devreotes, P.N., and Ueda, M. (2018)
 Chemoattractant receptors activate, recruit and capture G proteins for wide range chemotaxis
 Biochem. Biophys. Res. Commun., 507: 304-310. (doi: 10.1016/j.bbrc.2018.11.029)


Miyagawa, T., Koteishi, H., Kamimura, Y., Miyanaga, Y., Takeshita, K., Nakagawa, A., and Ueda, M. (2018).
Structural basis of Gip1 for cytosolic sequestration of G-protein in wide range chemotaxis  
 Nature Communications 9, Article number: 4635. (doi: 10.1038/s41467-018-07035-x)
 プレスリリース


Matsuoka, S., and Ueda, M. (2018)
Mutual inhibition between PTEN and PIP3 generates bistability for polarity in motile cells. 
 Nature Communications 9, Article number: 4481 (doi: 10.1038/s41467-018-06856-0)
 プレスリリース


Yanagawa, M., Hiroshima, M., Togashi, Y., Abe, M., Yamashita, T., Shichida ,Y., Murata, M., Ueda, M. and Sako, Y. (2018)
 Single-molecule diffusion-based estimation of ligand effects on G protein-coupled receptors
 Science Signaling, Vol. 11, Issue 548, eaao1917. (doi: 10.1126/scisignal.aao1917)
 プレスリリース


Yasui M., Hiroshima M., Kozuka J., Sako Y., and Ueda M. (2018)
 Automated single-molecule imaging in living cells
 Nature Communications, 9, Article number: 3061 (doi: 10.1038/s41467-018-05524-7)
 プレスリリース


Pervin, M.S., Itoh, G., Talukder, M.S.U., Fujimoto, K., Morimoto, Y.V., Tanaka, M., Ueda, M., Yumura, S. (2018)
 A study of wound repair in Dictyostelium cells by using novel laserporation
 Scientific Report, 8: 7969. (doi: 10.1038/s41598-018-26337-0.)


Hiroshima, M., Pack, C.G., Kaizu, K., Takahashi, K., Ueda, M., and Sako, Y. (2018)
  Transient acceleration of epidermal growth factor receptor dynamics produces higherorder signaling clusters
  Journal of Molecular Biology, 430(9): 1381-1396 (doi: 10.1016/j.jmb.2018.02.018)


宮永之寛、上村陽一郎、上田昌宏 (2018)
 三量体Gタンパク質の局在制御を介した走化性レンジの拡張機構
 生物物理, 58 巻 5 号, p. 237-240. (doi 10.2142/biophys.58.237)


廣島通夫、上田昌宏 (2018)
 “超解像顕微鏡, PALM/STORM” 『生きてるものは全部観る!イメージングの選び方・使い方100+』
 実験医学, 36 巻 , p. 236.

2017年


Sato, R., Kozuka, J., Ueda, M., Mishima, R., Kumagai, Y., Yoshimura, A., Minoshima, M., Mizukami, S., and Kikuchi, K. (2017)
  Intracellular protein-labeling probes for multicolor single-molecule imaging of immune receptor-adaptor molecular dynamics
  J. Am. Chem. Soc., 139, 17397-17404 (doi: 10.1021/jacs.7b08262)

2016年


Matsuoka, S., Miyanaga, Y. and Ueda, M. (2016)
  Multi-state Transition Kinetics of Intracellular Signaling Molecules by Single-Molecule Imaging Analysis.
  Methods in Molecular Biology, 1407: 361-379 (doi: 10.1007/978-1-4939-3480-5_25)


Kamimura, Y., Miyanaga, Y. and Ueda, M. (2016)
  Heterotrimeric G-protein shuttling via Gip1 extends the dynamic range of eukaryotic chemotaxis.
  Proc. Natl. Acad. Sci. USA., 113(16): 4356-4361 (doi: 10.1073/pnas.1516767113)
(Faculty of 1000 Biologyに選出されました.)

2015年


Ishibashi, M., Miyanaga, Y., Matsuoka, S., Kozuka, J., Togashi, T., Kinashi, T. and Ueda, M. (2015)
  Integrin LFA-1 regulates cell adhesion via transient clutch formation.
  Biochemical and Biophysical Research Communications, 464: 459-466 (doi:10.1016/j.bbrc.2015.06.155)


Watabe, M., Arjunan, S.N.V., Fukushima, S., Iwamoto, K., Kozuka, J., Matsuoka, S., Shindo, Y., Ueda, M. and Takahashi, K. (2015)
  A computational framework for bioimaging simulation.
  PLoS One, 10(7): e0130089 (doi: 10.1371/journal.pone.0130089)


Komatsuzaki, A., Ohyanagi, T., Tsukasaki, Y., Miyanaga, Y., Ueda, M., and Jin, T. (2015)
  Compact Halo-Ligand Conjugated Quantum Dots for Multicolored Single-Molecule Imaging of Overcrowding GPCR Proteins on Cell Membrane.
  Small, 11: 1396–1401 (doi: 10.1002/smll.201402508)


松岡里実、上田昌宏 (2015)
  イノシトールリン脂質シグナル.
  生体の科学,増大特集 『細胞シグナル操作法』, 66巻5号: 392-393.

2014年


Yasui, M., Matsuoka, S., and Ueda M. (2014)
PTEN hopping on the cell membrane is regulated via a positively-charged C2 domain.
  PLOS Computational Biology. 10: e1003817. (doi: 10.1371/journal.pcbi.1003817)
(Faculty of 1000 Biologyに選出されました.)


Cai, H., Katoh-Kurasawa, M., Muramoto, T., Santhanam, B., Long, Y., Li, L., Ueda, M., Iglesias, P. A., Shaulsky, G., and Devreotes, P, N. (2014)
Nucleocytoplasmic shuttling of a GATA transcription factor functions as a development timer.
  Science 343(6177): 1249531. (doi: 10.1126/science.1249531)
(Faculty of 1000 Biologyに選出されました.)


Nishikawa, M., Hörning, M., Ueda, M. and Shibata, T. (2014)
  Excitable signal transduction induces both spontaneous and directional cell asymmetries in the Phosphatidylinositol Lipid Signaling System for Eukaryotic Chemotaxis.
  Biophysical Journal, 106: 723-734. (doi:10.1016/j.bpj.2013.12.023)


佐甲靖志,廣島通夫,日比野佳代 (2014)
  細胞内情報処理反応の1分子計測:タンパク質ダイナミクスと分子認識.
  1分子ナノバイオ計測(化学同人), 180–189.


日比野佳代 (2014)
  1分子FRET計測.
  1分子生物学(化学同人), 205–213.


松岡里実,上田昌宏 (2014)
  1分子イメージングによる走化性情報伝達系の動態解析.
  生体の科学, 増大特集 『生命動態システム科学』, 65巻5号: 394-395.


松岡里実,上田昌宏 (2014)
  細胞表面における情報処理.
  1分子生物学(化学同人), 139-147.


柴田達夫,西川正俊,上田昌宏 (2014)
  ゆらぎの伴うシグナル伝達系による走化性細胞のロバストな勾配センシング.
  細胞工学, 33巻6号: 592-597.


高木拓明,佐藤雅之,上田昌宏 (2014)
  細胞運動のゆらぎから探るロバストな細胞情報処理機構.
  細胞工学, 33巻1号: 48-54.


上田昌宏 (2014)
  2013年:「生命動態のシステム科学」零年.
  パリティー(丸善), 29巻1号.

2013年


Kuwayama, H., Miyanaga, Y., Urushihara, H. and Ueda, M. (2013)
  A RabGAP Regulates Life-Cycle Duration via Trimeric G-protein Cascades in Dictyostelium discoideum.
  PLOS ONE, 8: e81811. (doi: 10.1371/journal.pone.0081811)


Shibata, T., Nishikawa, M., Matsuoka, S., and Ueda, M. (2013)
  Intracellular encoding of spatiotemporal guidance cues in a self-organizing signaling system for chemotaxis in Dictyostelium cells.
  Biophys. J., 105: 2199-2209. (doi:10.1016/j.bpj.2013.09.024)


Okamoto, M., Namba, T., Shinoda, T., Kondo, T., Watanabe, T., Inoue, Y., Takeuchi, K., Enomoto, Y., Ota, K., Oda, K., Wada, Y., Sagou, K., Saito, K., Sakakibara, A., Kawaguchi, A., Nakajima, K., Adachi, T. Fujimori, T., Ueda, M., Hayashi, S., Kaibuchi, K. and Miyata, T. (2013)
  TAG-1-assisted progenitor elongation streamlines nuclear migration to optimize subapical crowding.
  Nature Neuroscience, 16: 1556-1566. (doi:10.1038/nn.3525)


Masud Rana, A.Y. K. Md., Tsujioka, M., Miyagishima, S., Ueda, M. and Yumura, S. (2013)
  Dynamin contributes to cytokinesis by stabilizing actin filaments in the contractile ring.
  Genes to Cells, 18: 621-635. (doi: 10.1111/gtc.12060)


Matsuoka, S. Shibata, T. and Ueda, M. (2013)
  Asymmetric PTEN distribution regulated by spatial heterogeneity in membrane-binding state transitions.
  PLoS Computational Biology, 9: e1002862. (doi:10.1371/journal.pcbi.1002862)


上田昌宏 (2013)
  真核細胞の走化性の物理.
  パリティー(丸善), 28巻12号: 24-32


廣島道夫,佐甲靖志 (2013)
  1分子キネティクス解析により示されたErbB受容体の反応調節機構.
  生物物理, 53巻6号: 24-32

2012年


Lee, J., Miyanaga, Y., Ueda, M. and Hohng, S. (2012)
Video-rate confocal microscopy for single-molecule imaging in live cells and super-resolution fluorescence imaging.
Biophys. J., 103: 1691-1697. (doi: 10.1016/j.bpj.2012.09.014. )
(Faculty of 1000 Biologyに選出されました.)


Shibata, T., Nishikawa, M., Matsuoka, S. and Ueda, M. (2012)
  Modeling the self-organized phosphatidylinositol lipids signaling system in chemotactic cells based on quantitative image analysis.
  Journal of Cell Science, 125: 5138-5150. (doi:10.1242/​jcs.108373)


Tsujioka, M. Yumura, S., Inouye, K., Patel, H., Ueda, M. and Yonemura, S. (2012)
Talin couples the actomyosin cortex to the plasma membrane during rear retraction and cytokinesis.
Proc. Natl. Acad. Sci. USA., 109: 12992-12997.
(Faculty of 1000 Biologyに選出されました.)


Nishimura, S. I., Ueda, M. and Sasai, M. (2012)
  Non-Brownian dynamics and strategy of amoeboid cell locomotion.
  Physical Review E. 85, 041909.


Matsuoka, S., Miyanaga, Y., Yanagida, T. and Ueda, M. (2012)
  Visualizing single molecules in living Dictyostelium cells using total internal reflection fluorescent microscopy (TIRFM).
  Cold Spring Harb Protoc. 2012(3): 349-351.


Matsuoka, S., Miyanaga, Y., Yanagida, T. and Ueda, M. (2012)
  Preparation of an imaging chamber for visualizing single molecules in living Dictyostelium cells.
  Cold Spring Harb Protoc. 2012(3): 346-348.


Matsuoka, S., Miyanaga, Y., Yanagida, T. and Ueda, M. (2012)
  Preparation of chemotactically competent Dictyostelium cells.
  Cold Spring Harb Protoc. 2012(3): 344-345.


Matsuoka, S., Miyanaga, Y., Yanagida, T. and Ueda, M. (2012)
  Single-molecule imaging of stochastic signaling events in living cells.
  Cold Spring Harb Protoc. 2012(3): 267-278.


松岡里実,宮永之寛,上田昌宏 (2012)
  細胞内1分子イメージング:走化性シグナル伝達反応の解析.
  『細胞性粘菌:研究の新展開〜モデル生物・創薬資源・バイオ〜』(株式会社 アイピーシー), 51-71.


辻岡政経 (2012)
  細胞接着の分子的な機構.
  『細胞性粘菌:研究の新展開〜モデル生物・創薬資源・バイオ〜』(株式会社 アイピーシー), 239-255.

2011年


Matsuoka, S. (2011)
  Statistical Analysis of Lateral Diffusion and Reaction Kinetics of Single Molecules on Membranes of Living Cells.
  In Cell Signaling Reactions: Single-Molecule Kinetic Analysis. (Sako, Y. and Ueda, M. eds). Springer-Verlag. 265-296.


Miyanaga, Y. and Ueda, M. (2011)
  Single-Molecule Kinetic Analysis of Stochastic Signal Transduction Mediated by G-protein Coupled Chemoattractant Receptors.
  In Cell Signaling Reactions: Single-Molecule Kinetic Analysis. (Sako, Y. and Ueda, M. eds). Springer-Verlag. 33-57.


Tsujioka, M. (2011)
  Cell migration in multicellular environments.
  Develop. Growth Differ., 53: 528-537.


柴田達夫,上田昌宏 (2011)
  細胞における情報処理の確率性と自発的対称性の破れ
  『生命科学の新しい潮流 理論生物学』 共立出版 編集 望月敦史,97-115.


松岡里実,上田昌宏 (2011)
  確率的な細胞内シグナル処理の1分子イメージング解析
  最新医学 第66巻,第10号,100-106.

2010年


Arai, Y., Shibata, T., Matsuoka, S., Sato, M. J., Yanagida, T. and Ueda, M. (2010).
Self-organization of the phosphatidylinositol lipids signaling system for random cell migration.
  Proc. Natl. Acad. Sci. USA, 107(27): 12399-12404. 
(Science Signaling, EDITORS' CHOICE に紹介されました.;"Organized Randomness", Vol. 3, Issue 130, p. ec210(13 July, 2010)
Nature Chemical Biology, Research Highlightsに紹介されました.;"Migration in cue-less cells", Vol. 6, p564(Augudt, 2010)
Faculty of 1000 Biologyに選出されました.
物理系研究者に生物関連論文を紹介する Virtual Journal of Biological Physics Research に選ばれました.)


松岡里実、佐藤雅之、上田昌宏 (2010).
  細胞の自発運動におけるPI(3,4,5)P3代謝系の自己組織化.
 『脂質生物学 - 脂質による生体調節の機構 - 』, 実験医学,28: 3266-3274.

2009年


Miyanaga, Y., Matsuoka, S. and Ueda, M. (2009).
  Single-molecule imaging techniques to visualize chemotactic signaling events on the membrane of living Dictyostelium cells.
  Chemotaxis. (eds. D. Hereld and T. Jin) Methods in Molecular Biology, 571: 417-435.


Matsuoka, S., Shibata, T. and Ueda, M. (2009).
  Statistical analysis of lateral diffusion and multi-state kinetics in single-molecule imaging.
  Biophys. J., 97: 1115-1124.


Sato, M. J., Kuwayama, H., van Egmond, W. N., Takayama, A. L. K., Takagi, H., van Haastert, P. J. M., Yanagida, T. and Ueda, M. (2009).
  Switching direction in electric-signal-induced cell migration by cyclic guanosine monophosphate and phosphatidylinositol signaling.
  Proc. Natl. Acad. Sci. USA, 106(16): 6667-6672. 
Faculty of 1000 Biologyに選出された.
物理系研究者に生物関連論文を紹介する Virtual Journal of Biological Physics Research に選ばれた.)


Nishimura, S. I., Ueda, M. and Sasai, M. (2009).
  Cortical factor feedback model for cellular locomotion and cytofission.
  PLoS Computational Biology, 5(3): e1000310.


上田昌宏 (2009).
  粘菌の走化性情報処理の仕組みを1分子計測で探る,
  『研究をささえるモデル生物 —実験室いきものガイド—』 (株式会社 化学同人), 193-194.


上田昌宏 (2009).
  確率的シグナル伝達反応の細胞内1分子蛍光イメージング解析,
  バイオインダストリー,((株)シーエムシー出版), Vol 26, No2, 39-46.


新井由之, 松岡里実, 上田昌宏 (2009).
  走化性情報処理反応の細胞内自己組織化とゆらぎ,
 『自己組織化ハンドブック』 ((株)エヌ・ティー・エス), 第1編基礎編,第1章パターン形成,3.生命系の数理 349-354.

2008年


Ueda, M., Shibata, T. and Sako, Y. (2008).
  Signal transduciton across the plasma membrane.  Single Molecule Dynamics in Life Science.
  (Yanagida, T. and Ishii, Y. eds.). WILEY-VCH Verelag GmbH & Co. KGaA, Weinheim, pp. 99-116.


Shibata, T. and Ueda, M. (2008).
  Noise generation, amplification and propagation in chemotactic signaling systems of living cells.
  BioSystems, 93: 126-132.


Matsuoka, S., Miyanaga, Y., Yanagida, T. and Ueda, M. (2008).
  Single molecule imaging of stochastic signaling events in living cells.
  Single Molecule Manual.
  (Selvin, P. R. and Ha, T. eds.) Cold Spring Harbor Laboratory Press. pp. 239-258.


Yumura, S., Ueda, M., Sako, Y., Kitanishi-Yumura, T. and Yanagida, T. (2008).
  Multiple mechanisms for accumulation of myosin II filaments at the equator during cytokinesis.
  Traffic, 9: 2089-2099.


Takagi, H., Sato, M. J., Yanagida, T. and Ueda, M. (2008).
  Functional analysis of spontaneous cell movement under different physiological conditions.
  PLoS ONE, 3(7): e2648.


Ueda, M., Ueda, M., Takagi, H., Sato, M. J., Yanagida, T., Yamashita, I. and Setsune, K. (2008).
  Biologically-inspired stochastic vector matching for noise-robust information processing.
  Physica A, 387: 4475-4481.


Kuwayama, H., Yanagida, T. and Ueda, M. (2008).
  DNA oligonucleotide-assisted genetic manipulation increases transformation and homologous recombination efficiencies: evidence from gene targeting of Dictyostelium discoideum.
  Journal of Biotechnology, 133: 418-423.

2007年


Yanagida, T., Ueda, M., Murata, T., Esaki, S. and Ishii, Y. (2007).
  Brownian motion, fluctuation and life.
  BioSystems, 88: 228-242.


Ueda, M. and Shibata, T. (2007).
  Stochastic signal processing and transduction in chemotactic response of eukaryotic cells.
  Biophys. J., 93: 11-20.


Sato, M. J., Ueda, M., Takagi, H., Watanabe, T. M., Yanagida, T. and Ueda, M. (2007).
  Input-output relationship in galvanotactic response of Dictyostelium cells.
  Biosystems, 88: 261-270.


Miyanaga, Y., Matsuoka, S., Yanagida, T. and Ueda, M. (2007).
  Stochastic signal inputs for chemotactic response in Dictyostelium cells revealed by single molecule imaging techniques.
  Biosystems, 88: 251-260.

2006年


Matsuoka, S., Iijima, M., Watanabe, T. M., Kuwayama, H. Yanagida, T., Devreotes, P. and Ueda M. (2006).
  Single molecule analysis of chemoattractant-stimulated membrane recruitment of a PH domain-containing protein.
  J. Cell Sci. 119: 1071-1079. 
(Journal of Cell Science Prize, Best Paper Award 2006.
Faculty of 1000 Biologyに選出された.)


Vazquez, F., Matsuoka, S., Sellers, W. R., Yanagida, T., Ueda, M. and Devreotes, P. (2006).
  Tumor suppressor PTEN acts through dynamic interaction with the plasma membrane.
  Proc. Natl. Acad. Sci. USA 103: 3633-3638.
(Faculty of 1000 Biologyに選出された.)

2005年以前


Ueda, M., Sako, Y., Tanaka, T., Devreotes, P. and Yanagida, T. (2001).
  Single molecule analysis of chemotactic signaling in Dictyostelium cells.
  Science 294: 864-867.


Wazawa, T. and Ueda, M. (2005).
  Total internal reflection fluorescence microscopy in single molecule nanobiology.
  Advances in Biochemical Engineering/Biotechnology. Microscopy Techniques.
  (Jens Rietdorf, ed.) SpringerVerlag, Special Volume: 95, 78-106.


Ueda, M., Miyanaga, Y. and Yanagida, T. (2005).
  Single-molecule analysis of chemotactic signaling mediated by cAMP receptor on living cells.
  Methods in signal transduction series: G protein-coupled receptors: Structure, Function and Ligand Screening.
  (Haga, T. and Takeda, S. eds.) 6, 197-218.


柴田達夫, 上田昌宏 (2005).
  細胞の反応ゆらぎとシグナル伝達,
  蛋白質・核酸・酵素 50: 1940-1947. (共立出版)


上田昌宏, 石井由晴, 柳田敏雄 (2002).
  生体ナノ分子機械の分子メカニズム
  応用物理 71: 1457-1466.


上田昌宏, 佐甲靖志 (2002).
  GPCR型走化性受容体の細胞内1分子可視化解析
  バイオイメージングでここまで理解る pp. 99-102. (羊土社)