Publication

Goto Y**, Aoki K**. (**Corresponding Authors)
Development of optogenetic tools to manipulate cell cycle checkpoints
bioRxiv, 2020. doi: https://doi.org/10.1101/2020.06.22.166264

Ashida K, Aoki K, Ito S.
Experimental evaluation of thermodynamic cost and speed limit in living cells via information geometry.
bioRxiv, 2020. doi:10.1101/2020.11.29.403097

Itoh T, Kondo Y, Aoki K, Saito N.
Emergence of Bow-tie Architecture in Evolving Feedforward Networks.
bioRxiv. 2023. p. 2023.03.28.534501. doi:10.1101/2023.03.28.534501 

Sakai K*, Kondo Y*, Goto Y**, Aoki K**. (*equal contribution, **Corresponding Author)
Cytoplasmic fluidization triggers breaking spore dormancy in fission yeast.
bioRxiv. 2023. p. 2023.09.27.559686. doi:10.1101/2023.09.27.559686 

Brumbaugh-Reed EH, Aoki K, Toettcher JE.
Rapid and reversible dissolution of biomolecular condensates using light-controlled recruitment of a solubility tag.
bioRxiv. 2024. p. 2024.01.16.575860. doi:10.1101/2024.01.16.575860 

Sugiyama H*, Goto Y*, Kondo Y, Coudreuse D, Aoki K. (*equal contribution)
Live-cell1imaging defines a threshold in CDK activity at the G2/M transition.
Developmental Cell 2024. doi:10.1016/j.devcel.2023.12.014
プレスリリース（NIBB, ExCELLS)

Sakai K, Aoki K**, Goto Y**. (**Corresponding Authors)
Live-cell fluorescence imaging and optogenetic control of PKA kinase activity in fission yeast Schizosaccharomyces pombe.
Yeast 2024. doi:10.1002/yea.3937

Tanaka S, Aoki K, Arakawa K.
In vivo expression vector derived from anhydrobiotic tardigrade genome enables live imaging in Eutardigrada.
Proc Natl Acad Sci U S A., 2023;120: e2216739120. doi:10.1073/pnas.2216739120
プレスリリース（ExCELLS, NIBB, 慶応義塾大学先端生命科学研究所）, 【所内環境のみ接続可：2023.1.31 科学新聞】

Kunida K, Takagi N, Aoki K, Ikeda K, Nakamura T, Sakumura Y.
Decoding cellular deformation from pseudo-simultaneously observed Rho GTPase activities.
Cell Reports, 2023; 112071. doi:10.1016/j.celrep.2023.112071
プレスリリース（ExCELLS, NIBB, NAIST, 藤田医科大学, 東京理科大学）

Oda S*, Sato-Ebine E*, Nakamura A, Kimura KD, Aoki K. (*equal contribution)
Optogenetic control of cell signaling with red/far-red light-responsive optogenetic tools in Caenorhabditis elegans.
ACS Synthetic Biology, 2023.12; 700–708. doi:10.1021/acssynbio.2c00461
プレスリリース（ExCELLS, NIBB, 名古屋市立大学）,【所内環境のみ接続可：2023.3.9 OPTRONICS ONLINE】

Kamino K, Kadakia N, Avgidis F, Liu Z-X, Aoki K, Shimizu TS, Emonet T.
Optimal inference of molecular interaction dynamics in FRET microscopy.
Proc Natl Acad Sci U S A., 2023;120: e2211807120. doi:10.1073/pnas.2211807120 

青木一洋
総論 蛍光タンパク質センサーの現状と将来展望
月刊「細胞」2023年 4月臨時増刊号　蛍光タンパク質センサー

後藤祐平、青木一洋
GPCRリガンドセンサーの開発
月刊「細胞」2023年 4月臨時増刊号　蛍光タンパク質センサー

Toyooka Y, Aoki K, Usami FM, Oka S, Kato A, Fujimori T.
Generation of pulsatile ERK activity in mouse embryonic stem cells is regulated by Raf activity.
Scientific Reports, 2023;13: 9465. doi:10.1038/s41598-023-36424-6

Hirashima T, Hino N, Aoki K, Matsuda M.
Stretching the limits of extracellular signal-related kinase (ERK) signaling - Cell mechanosensing to ERK activation.
Current Opinion in Cell Biology, 2023;84: 102217. doi:10.1016/j.ceb.2023.102217 

Yagi-Utsumi M, Miura H, Ganser C, Watanabe H, Hiranyakorn M, Satoh T, Uchihashi T, Kato K, Okazaki K, Aoki K.
Molecular Design of FRET Probes Based on Domain Rearrangement of Protein Disulfide Isomerase for Monitoring Intracellular Redox Status.
International Journal of Molecular Science, 2023;24: 12865. doi:10.3390/ijms241612865 

Tomizawa Y, Minamino N, Shimokawa E, Kawamura S, Komatsu A, Hiwatashi T, Nishihama R, Ueda T, Kohchi T, Kondo Y.
Harnessing Deep Learning to Analyze Cryptic Morphological Variability of Marchantia polymorpha.
Plant Cell Physiology, 2023. doi:10.1093/pcp/pcad117 

Goh T, Song Y, Yonekura T, Obushi N, Den Z, Imizu K, Tomizawa Y, Kondo Y, Miyashima S, Iwamoto Y, Inami M, Chen Y-W, Nakajima K.
In-Depth Quantification of Cell Division and Elongation Dynamics at the Tip of Growing Arabidopsis Roots Using 4D Microscopy, AI-Assisted Image Processing and Data Sonification.
Plant Cell Physiology, 2023. doi:10.1093/pcp/pcad105 

Ikeda H, Uchikawa T, Kondo Y, Takahashi N, Shishikui T, Watahiki MK, Kubota A, Endo M.
Circadian Clock Controls Root Hair Elongation through Long-Distance Communication.
Plant Cell Physiology, 2023. doi:10.1093/pcp/pcad076 

Minamino N, Fujii H, Murata H, Hachinoda S, Kondo Y, Hotta K, Ueda T.
Analysis of plant-specific ANTH domain-containing protein in Marchantia polymorpha.
Plant Cell Physiology, 2023. doi:10.1093/pcp/pcad118

Nakamura A, Goto Y**, Sugiyama H, Tsukiji S, Aoki K**. (**Corresponding Authors)
Chemogenetic Manipulation of Endogenous Proteins in Fission Yeast Using a Self-Localizing Ligand-Induced Protein Translocation System.
ACS Chemical Biology, 2023. doi:10.1021/acschembio.3c00478
プレスリリース（ExCELLS, NIBB）

Otsubo Y, Yamashita A, Goto Y, Sakai K, Iida T, Yoshimura S, Johzuka K.
Cellular responses to compound stress induced by atmospheric-pressure plasma in fission yeast.
Journal of Cell Science, 2023. doi:10.1242/jcs.261292
プレスリリース（NIBB）

Nakayama T, Tanikawa M, Okushi Y, Itoh T, Shimmura T, Maruyama M, Yamaguchi T, Matsumiya A, Shinomiya A, Guh Y-J, Chen J, Naruse K, Kudoh H, Kondo Y, Naoki H, Aoki K, Nagano A, Yoshimura T.
A transcriptional program underlying the circannual rhythms of gonadal development in medaka.
Proc Natl Acad Sci U S A., 2023;120: e2313514120. doi:10.1073/pnas.2313514120
プレスリリース（ExCELLS, NIBB）

Aragaki H, Ogoh K, Kondo Y, Aoki K.
LIM Tracker: a software package for cell tracking and analysis with advanced interactivity.
Scientific Reports, 2022;12: 1–14. doi:10.1038/s41598-022-06269-6

Tany R, Goto Y**, Kondo Y, Aoki K**. (**Corresponding Authors)
Quantitative live-cell imaging of GPCR downstream signaling dynamics.
Biochemical Journal, 2022;479: 883–900. doi:10.1042/BCJ20220021

Suzuki S*, Nakamura A*, Hatano Y, Yoshikawa M, Yoshii T, Sawada S, Atsuta-Tsunoda K, Aoki K, Tsukiji S. (*equal contribution)
A chemogenetic platform for controlling plasma membrane signaling and synthetic signal oscillation.
Cell Chemical Biology, 2022. doi:10.1016/j.chembiol.2022.06.005

Hu X, Roy SR, Jin C, Li G, Zhang Q, Asano N, Asahina S, Kajiwara T, Takahara A, Feng B, Aoki K, Xu C & Zhang Y.
Control cell migration by engineering integrin ligand assembly.
Nature Communications, 2022;13: 5002. doi:10.1038/s41467-022-32686-2

Hino N, Matsuda K, Jikko Y, Maryu G, Sakai K, Imamura R, Tsukiji S, Aoki K, Terai K, Hirashima T, Trepat X, Matsuda M.
A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration.
Developmental Cell, 2022. doi:10.1016/j.devcel.2022.09.003

山本 啓，近藤 洋平
ミオシンの光操作で明らかになった細胞質分裂における両極アクトミオシンの寄与
生物物理, 62（5），285-287（2022）DOI: 10.2142/biophys.62.285

青木 一洋
思春期
生物物理, 62  (6)  ，323  (2022)

Goto Y, Kondo Y, Aoki K.
Visualization and Manipulation of Intracellular Signaling.
Adv Exp Med Biol., 2021;1293:225-234. doi: 10.1007/978-981-15-8763-4_13

Yano T, Tsukita K, Kanoh H, Nakayama S, Kashihara H, Mizuno T, Tanaka H, Matsui T, Goto Y, Komatsubara A, Aoki K, Takahashi R, Tamura A, Tsukita S.
A microtubule‐LUZP1 association around tight junction promotes epithelial cell apical constriction.
The EMBO Journal, 2021;40. https://doi.org/10.15252/embj.2020104712

Kajiwara K, Yamano S, Aoki K, Okuzaki D, Matsumoto K, Okada M.
CDCP1 promotes compensatory renal growth by integrating Src and Met signaling.
Life Sci Alliance, 2021;4. doi:10.26508/lsa.202000832

Asakura Y, Kondo Y, Aoki K, Naoki H.
Hierarchical modeling of mechano-chemical dynamics of epithelial sheets across cells and tissue.
Scientific Reports, 2021;11: 4069. doi:10.1038/s41598-021-83396-6

Farahani PE, Reed EH, Underhill EJ, Aoki K, Toettcher JE.
Signaling, Deconstructed: Using Optogenetics to Dissect and Direct Information Flow in Biological Systems.
Annu Rev Biomed Eng., 2021. doi:10.1146/annurev-bioeng-083120-111648

Ito RE, Oneyama C, Aoki K.
Oncogenic mutation or overexpression of oncogenic KRAS or BRAF is not sufficient to confer oncogene addiction.
PLoS One, 2021 Apr 1;16(4):e0249388. doi: 10.1371/journal.pone.0249388. eCollection 2021.

Wen C, Miura T, Voleti V, Yamaguchi K, Tsutsumi M, Yamamoto K, Otomo K, Fujie Y, Teramoto T, Ishihara T, Aoki K, Nemoto T, Hillman EM, Kimura KD.
3DeeCellTracker, a deep learning-based pipeline for segmenting and tracking cells in 3D time lapse images.
Elife, 2021;10: e59187. doi:10.7554/eLife.59187

Nakamura A, Goto Y, Kondo Y, Aoki K.
Shedding light on developmental ERK signaling with genetically encoded biosensors.
Development, 2021;148. doi:10.1242/dev.199767

Verma A, Jena SG, Isakov DR, Aoki K, Toettcher JE, Engelhardt BE.
A self-exciting point process to study multicellular spatial signaling patterns.
Proc Natl Acad Sci U S A., 2021;118. doi:10.1073/pnas.2026123118

後藤 祐平, 青木 一洋
特集：ライブセルイメージング：細胞機能の可視化と操作
『ライブセルイメージングによる細胞内シグナル伝達の可視化と光操作』
顕微鏡. 2021 年 56 巻 2 号 p. 54-58. https://doi.org/10.11410/kenbikyo.56.2_54

Matsui K, Okamoto K, Hasegawa T, Ohtsuka H, Shimasaki T, Ihara K, Goto Y, Aoki K, Aiba H.
Identification of ksg1 mutation showing long-lived phenotype in fission yeast.
Genes to Cells, 2021. doi:10.1111/gtc.12897

Yagi-Utsumi M, Aoki K, Watanabe H, Song C, Nishimura S, Satoh T, Yanaka S, Ganser C, Tanaka S, Schnapka V, Goh EW, Furutani Y, Murata K, Uchihashi T, Arakawa K, Kato K.
Desiccation-induced fibrous condensation of CAHS protein from an anhydrobiotic tardigrade.
Scientific Reports, 2021;11: 1–9. doi:10.1038/s41598-021-00724-6
プレスリリース（ExCELLS, NIBB, IMS, NIPS, 名古屋大）, EurekAlert!, 【所内環境のみ接続可：2021.11.8 NEWS SALT, TechCrunch】

Nakamoto C*, Goto Y*, Tomizawa Y, Fukata Y, Fukata M, Harpsoe K, Gloriam D.E., Aoki K**, Takeuchi T**. (*equal contribution, **Corresponding authors)
A novel red fluorescence dopamine biosensor selectively detects dopamine in the presence of norepinephrine in vitro.
Molecular Brain, 2021;14: 1–14. doi:10.1186/s13041-021-00882-8
プレスリリース（ExCELLS, NIBB, NIPS）,【所内環境のみ接続可：2021.12.20 OPTRONICS online】

Hiiragi T, Gladfelter AS, Miguel-Aliaga I, Coller HA, Lau OS, McBride HM, Aoki K, Linkermann A, Santaguida S, Wasteneys G, Rivron NC, Shahbazi MN, Ebisuya M, Lancaster MA.
20 years of Developmental Cell: Looking forward.
Developmental Cell, 2021;56: 3185–3191. doi:10.1016/j.devcel.2021.11.017

Yamamoto K, Miura H, Ishida M, Mii Y, Kinoshita N, Takada S, Ueno N, Sawai S, Kondo Y**, Aoki K**. (**Corresponding Authors)
Optogenetic relaxation of actomyosin contractility uncovers mechanistic roles of cortical tension during cytokinesis.
Nature Communications, 2021;12: 1–13. doi:10.1038/s41467-021-27458-3
*Some plasmids used in this study are deposited in Addgene.
プレスリリース（ExCELLS, NIBB）, EurekAlert!,【所内環境のみ接続可：2021.12.8 Phys.org その他8件, 2021.12.9 OPTRONICS online, 2021.12.10 日経バイオテク 】
総研大研究助成学生の研究紹介

Sakai K, Kondo Y, Fujioka H, Kamiya M, Aoki K**, Goto Y**. (**Corresponding Authors)
Near-infrared imaging in fission yeast using a genetically encoded phycocyanobilin biosynthesis system.
Journal of Cell Science, 2021;134. doi:10.1242/jcs.259315
第一著者の酒井くんが "First person" で紹介されました, Link
プレスリリース（ExCELLS, NIBB）, 【所内環境のみ接続可：2021.12.21 OPTRONICS online】

Nakayama H, Rowland SD, Cheng Z, Zumstein K, Kang J, Kondo Y, Sinha NR.
Leaf form diversification in an ornamental heirloom tomato results from alterations in two different HOMEOBOX genes.
Current Biology, 2021;31: 4788–4799.e5. doi:10.1016/j.cub.2021.08.023 

青木一洋
フィトクロム B を用いた赤色光 / 遠赤色光による細胞内シグナル伝達系の光操作
光学, 49(1); 14-19, 2020.

Nakamura A, Oki C, Kato K, Fujinuma S, Maryu G, Kuwata K, Yoshii T, Matsuda M, Aoki K, Tsukiji S
Engineering orthogonal, plasma membrane-specific SLIPT systems for multiplexed chemical control of signaling pathways in living single cells
ACS Chemical Biology, 2020, 15; 1004-1015.  doi: 10.1021/acschembio.0c00024

Yagi H, Yagi-Utsumi M, Honda R, Ohta Y, Saito T, Nishio M, Ninagawa S, Suzuki K, Anzai T, Kamiya Y, Aoki K, Nakanishi M, Satoh T, Kato K
Improved secretion of glycoproteins using an N-glycan-restricted passport sequence tag recognized by cargo receptor
Nature Communications, 2020, 11; 1368.  doi: 10.1038/s41467-020-15192-1

Hino N, Rossetti L, Marin-Llaurado A, Aoki K, Trepat X, Matsuda M, Hirashima T
ERK-mediated mechanochemical waves direct collective cell polarization
Developmental Cell, Volume 53, Issue 6, 22 June 2020, Pages 646-660.e8

Akiyama S, Aoki K, Kubo Y
Biophysical research in Okazaki, Japan.
Biophysical Reviews, 15 Feb 2020, 12(2):237-243
DOI: 10.1007/s12551-020-00633-4 PMID: 32062838 PMCID: PMC7242583

Uda Y*, Miura H*, Goto Y, Yamamoto K, Mii Y, Kondo Y, Takada S, Aoki K. (*equal contribution)
Improvement of Phycocyanobilin Synthesis for Genetically Encoded Phytochrome-Based Optogenetics
ACS Chemical Biology 2020, 15, 11, 2896–2906, https://doi.org/10.1021/acschembio.0c00477
*Some plasmids used in this study are deposited in Addgene.

Komatsubara A*, Goto Y*, Kondo Y, Matsuda M, Aoki K** (*equal contribution, **Corresponding Author)
Single-cell quantification of the concentrations and dissociation constants of endogeneous proteins
Journal of Biological Chemistry, 2019, 294; 6062-6072.  doi: 10.1074/jbc.RA119.007685
*Some plasmids used in this study are deposited in Addgene.
基生研プレスリリース

青木 一洋
ERK MAPキナーゼによる細胞増殖と細胞集団運動の制御
Journal of Japanese Biochemical Society 91(1); 73-80 (2019).  doi: 10.14952/SEIKAGAKU.2019.910073

近藤 洋平
動く組織の力学特性を測る
生体の科学 特集 メカノバイオロジー, 70(4); 284-289, 2019.

後藤 祐平、青木 一洋
赤色光/遠赤色光による哺乳類培養細胞のシグナル伝達系の光操作
生物物理 59(6); 327-329, 2019.  doi: 10.2142/biophys.59.327

Oda S, Uda Y, Goto Y, Miura H, Aoki K (Corresponding Author)
Optogenetic Tools for Quantitative Biology: The Genetically Encoded PhyB–PIF Light-inducible Dimerization System and Its Application for Controlling Signal Transduction
Optogenetics,  2018; 137-148.  doi: 10.1016/j.celrep.2018.08.020

青木一洋
組織の秩序を保つ細胞の集団運動のしくみ
JT生命誌 季刊「生命誌」98号

Miura H, Kondo Y, Matsuda M, Aoki K (Corresponding Author)
Cell-to-cell heterogeneity in p38-mediated cross-inhibition of JNK causes stochastic cell death
Cell Reports, 2018, 24; 2658-2668.  doi: 10.1016/j.celrep.2018.08.020
*Some plasmids used in this study are deposited in Addgene.
基生研プレスリリース

青木一洋、宇田燿一、小田茂和、後藤祐平
細胞外からの発色団添加を必要としない赤色光／近赤外光によるシグナル伝達系の光操作
実験医学「サイズ生物学」クローズアップ実験法, 36, 2018.

Muta Y, Fujita Y, Sumiyama K, Sakurai A, Taketo MM, Chiba T, Seno H, Aoki K, Matsuda M, Imajo M
Composite regulation of ERK activity dynamics underlying tumour-specific traits in the intestine
Nature Communications, 2018, 9; 2174.  doi: 10.1038/s41467-018-04527-8

Maryu G*, Miura H*, Uda Y, Komatsubara AT, Matsuda M, Aoki K (Corresponding Author)(* Equal contribution)
Live-cell imaging with genetically encoded protein kinase activity reporters
Cell Structure and Function, 2018, 43; 61-74.  doi: 10.1247/csf.18003

Kondo Y (Corresponding Author), Aoki K, Ishii S
Inverse tissue mechanics of cell monolayer expansion
PLoS Computational Biology, 2018, 14; e1006029.  doi: 10.1371/journal.pcbi.1006029

青木一洋
蛍光顕微鏡 ⅳ．FRET
実験医学増刊「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＋」第1章 光学顕微鏡, 36, 2018.

Yamao M, Aoki K, Yukinawa N, Ishii S, Matsuda M, Naoki H
Two New FRET Imaging Measures: Linearly Proportional to and Highly Contrasting the Fraction of Active Molecules.
PLoS One. 2016, 11; e0164254.  doi: 10.1371/journal.pone.0164254

Kamezaki A, Sato F, Aoki K, Asakawa K, Kawakami K, Matsuzaki F, Sehara-Fujiwara A
Visualization of Neuregulin 1 ectodomain shedding reveals its local processing in vitro and in vivo
Scientific Reports, 2016, 6; 28873.  doi: 10.1038/srep28873

Maryu G, Matsuda M, Aoki K (Corresponding Author)
Multiplexed fluorescence imaging of ERK and Akt activities and cell-cycle progression
Cell Structure and Function, 2016, 41; 81-92.  doi: 10.1247/csf.16007.  2016年度日本細胞生物学会論文賞（CSF Award）受賞
*Some plasmids used in this study are deposited in Addgene.

Inaba K, Oda K, Aoki K, Sone K, Ikeda Y, Miyasaka A, Kashiyama T, Fukuda T, Makii C, Arimoto T, Wada-Hiraike O, Kawana K, Yano T, Osuga Y, Fujii T.
Synergistic antitumor effects of combination of PI3K/mTOR and MEK inhibition (SAR245409 and pimasertib) in mucinous ovarian carcinoma cells by fluorescence resonance energy transfer imaging
Oncotarget, 2016, 7; 29577-29591.  doi: 10.18632/oncotarget.8807

青木一洋
細胞内情報伝達系の定量的なシミュレーション
生体の科学 増大特集 生命動態システム科学, 65 (5); 490-491, 2017.

Nagata Y, Kontani K, Enami T, Kataoka K, Ishii R, Totoki Y, Kataoka TR, Hirata M, Aoki K, Nakano K, Kitanaka A, Sakata-Yanagimoto M, Egami S, Shiraishi Y, Chiba K, Tanaka H, Shiozawa Y, Yoshizato T, Suzuki H, Kon A, Yoshida K, Sato Y, Sato-Otsubo A, Sanada M, Munakata W, Nakamura H, Hama N, Miyano S, Nureki O, Shibat T, Haga H, Shimoda K, Katada T, Chiba S, Watanabe T, Ogawa S
Variegated RHOA mutations in adult T-cell leukemia/lymphoma
Blood, 2015, 127; 596-604.  doi: 10.1182/blood-2015-06-644948

Yamao M, Naoki H, Kunida K, Aoki K, Matsuda M, Ishii S
Distinct predictive performance of Rac1 and Cdc42 in cell migration
Scientific Reports, 2015, 5; 17527.  doi:10.1038/srep17527

Aoki K (Corresponding Author)
Visualization of Intracellular Signaling with Fluorescence Resonance Energy Transfer-Based Biosensors
Protein Modifications in Pathogenic Dysregulation of Signaling, 2015; 31-41.  doi: 10.1007/978-4-431-55561-2

Komatsubara AT, Matsuda M, Aoki K (Corresponding Author)
Quantitative analysis of recombination between YFP and CFP genes of FRET biosensors introduced by lentiviral or retroviral gene transfer
Scientific Reports, 2015, 5; 13283.  doi:10.1038/srep13283

Komatsu N, Fujita Y, Matsuda M, Aoki K (Corresponding Author)
mTORC1 upregulation via ERK-dependent gene expression change confers intrinsic resistance to MEK inhibitors in oncogeneic KRas-mutant cancer cells
Oncogene, 2015, 34; 5607-5616.  doi:10.1038/onc.2015.16

Hiratsuka T, Fujita Y, Naoki H, Aoki K, Kamioka Y, Matsuda M
Intercellular propagation of extracellular signal-regulated kinase activation revealed by in vivo imaging of mouse epidermis
eLife, 2015, 4; e05178.  doi: 10.7554/eLife.05178.001

Kunida K, Matsuda M, Aoki K (Corresponding Author)
FRET imaging and statistical signalprocessing reveal positive and negative feedback loops regulating themorphology of randomly migrating HT-1080 cells
Journal of  Cell Science, 2012, 125; 2381-2192.  doi: 10.1242/jcs.096859

Aoki K, Komatsu N, Hirata E, Kamioka Y, Matsuda M
Stable expression of FRET biosensors: A new light in cancer research
Cancer Science, 2012, 103; 614-619.  doi: 10.1111/j.1349-7006.2011.02196.x

Aoki K, Komatsu N, Goto A, Matsuda M
Visualization of Protein Kinase Activities in Living Cells
Protein Kinase Technologies, 2012, 3-12.  doi: 10.1007/978-1-61779-824-5_1

Aoki K, Matsuda M
Visualization of small GTPase activity with fluorescence resonance energy transfer-based biosensors
Nature Protocols, 2009, 4; 1623-1631.  doi: 10.1038/nprot.2009.175

Tsukada Y, Aoki K, Nakamura T, Sakumura Y, Matsuda M, Ishii S
Quantification of local morphodynamics and local GTPase activity by edge evolution tracking
PLoS Computational Biology, 2008, 4; e1000223.  doi: 10.1371/journal.pcbi.1000223

Nakamura T, Aoki K, Matsuda M
FRET imaging and in silico simulation: analysis of the signaling network of nerve growth factor-induced neuritogenesis
Brain Cell Biology, 2008, 36; 19-30.  doi: 10.1007/s11068-008-9028-5

Aoki K, Kiyokawa E, Nakamura T, Matsuda M
Visualization of growth signal transduction cascades in living cells with genetically encoded probes based on Forster resonance energy transfer
Philosophical Transactions of The Royal Society B Biological Sciences, 2008, 363; 2143-2151.  doi: 10.1098/rstb.2008.2267

Nishioka T, Aoki K, Hikake K, Yoshizaki H, Kiyokawa E, Matsuda M
Rapid Turnover Rate of Phosphoinositides at the Front of Migrating MDCK Cells
Molecular Biology of the Cell, 2008, 19; 4213-4223.  doi: 10.1091/mbc.e08-03-0315

Itoh RE, Kiyokawa E, Aoki K, Nishioka T, Akiyama T, Matsuda M
Phosphorylation and activation of the Rac1 and Cdc42 GEF Asef in A431 cells stimulated by EGF
Journal of Cell Science, 2008, 121; 2635-2642.  doi: 10.1242/jcs.028647

Aoki K, Nakamura T, Inoue T, Meyer T, Matsuda M
An essential role for the SHIP2-dependentnegative feedback loop in neuritogenesis of NGF-stimulated PC12 cells
Journal of Cell Biology, 2007, 177; 817-827.  doi: 10.1083/jcb.200609017

Hisata S, Sakisaka T, Baba T, Yamada T, Aoki K, Matsuda M, Takai Y
Rap1-PDZ-GEF1 interacts with a neurotrophin receptor at late endosomes, leading to sustained activation of Rap1 and ERK and neurite outgrowth
Journal of Cell Biology, 2007, 178; 843-860.  doi: 10.1083/jcb.200610073

Nakamura T, Aoki K, Matsuda M
Monitoring spatio-temporal regulation of Ras and Rho GTPases with GFP-based FRET probes
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Nakamura T, Aoki K, Matsuda M
FRET imaging in nerve growth cones reveals a high level of RhoA activity within the peripheral domain
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Aoki K, Nakamura T, Fujikawa K, Matsuda M
Local PIP3 Accumulation Recruits Vav2 and Vav3 to Activate Rac1/Cdc42 and Initiate Neurite Outgrowth in Nerve Growth Factor-stimulated PC12 Cells
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