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Publications

Preprint Original Articles (under review)

  1. Tomoya Maruyama, Jing Gong, *Masahiro Takinoue, “Temporally controlled multistep division of DNA droplets for dynamic artificial cells”, ChemRxiv, (2024), DOI: 10.26434/chemrxiv-2024-z67br
  2. Hirotake Udono, Shin-ichiro M. Nomura, *Masahiro Takinoue, “Photoinduced gel–liquid transition of DNA fluid generates remote-controlled nonequilibrium microflow”, ChemRxiv, (2022), DOI: 10.26434/chemrxiv-2022-0n2fm

Peer-reviewed Original Articles

  1. Tomoya Maruyama, Jing Gong, *Masahiro Takinoue, “Temporally controlled multistep division of DNA droplets for dynamic artificial cells”, Nature Communications, 15, 7397 (2024). DOI: 10.1038/s41467-024-51299-5
    (Preprint in ChemRxiv, (2024), DOI: 10.26434/chemrxiv-2024-z67br)
  2. Nagi Yamashita, *Yusuke Sato, Yuki Suzuki, Daisuke Ishikawa, *Masahiro Takinoue, “DNA-origami-armored DNA condensates”, ChemBioChem, (2024). DOI: 10.1002/cbic.202400468
    (Preprint in ChemRxiv, (2024), DOI: 10.26434/chemrxiv-2024-njhv3)
  3. Hirotake Udono, Minzhi Fan, Yoko Saito, Hirohisa Ohno, Shin-ichiro M. Nomura, Yoshihiro Shimizu, Hirohide Saito, *Masahiro Takinoue, “Programmable computational RNA droplets assembled via kissing-loop interaction”, ACS Nano, 18(24), 15477-15486 (2024). DOI: 10.1021/acsnano.3c12161
    (highlighted as a supplementary cover of the issue: link)
    Press release: [Japanese][English]
    (Preprint in ChemRxiv, (2023), DOI: 10.26434/chemrxiv-2023-qjw7w)
  4. Masamune Morita, Tetsuro Sakamoto, Shin-ichiro M. Nomura, Satoshi Murata, *Miho Yanagisawa, *Masahiro Takinoue, “Liquid DNA coacervates form porous capsular hydrogels via viscoelastic phase separation on microdroplet interface”, Adv. Mater. Interf., 11(13), 2300898 (2024). DOI: 10.1002/admi.202300898
    (highlighted as a front cover of the issue: link)
    (Preprint in ChemRxiv, (2023), DOI: 10.26434/chemrxiv-2023-jvs7d)
  5. *Yusuke Sato, *Masahiro Takinoue, “Sequence-dependent fusion dynamics and physical properties of DNA droplets”, Nanoscale Advances, 5, 1919-1925, (2023), DOI: 10.1039/D3NA00073G
    (highlighted as the inside front cover picture of the issue: link)
  6. Marcos Masukawa, Yusuke Sato, Fujio Yu, Kanta Tsumoto, Kenichi Yoshikawa, *Masahiro Takinoue, “Water-in-water droplets selectively uptake self-assembled DNA nano/microstructures: a versatile method for purification in DNA nanotechnology”, ChemBioChem, 23, e202200240, (2022), DOI: 10.1002/cbic.202200240
    (highlighted as the front cover picture of the issue: link)
  7. Jing Gong, Nozomi Tsumura, Yusuke Sato, *Masahiro Takinoue, “Computational DNA droplets recognizing miRNA sequence inputs based on liquid-liquid phase separation”, Adv. Funct. Mater., 32, 2202322, (2022), DOI: 10.1002/adfm.202202322
    (highlighted as the front cover picture of the issue: link)
    Press release: [Japanese] [English]
  8. *Yusuke Sato, *Masahiro Takinoue, “Capsule-like DNA hydrogels with patterns formed by lateral phase separation of DNA nanostructures”, JACS Au, Vol.2, pp.159-168, (2021), DOI: 10.1021/jacsau.1c00450
    (highlighted as a cover picture of the issue: link)
    Press release: [Japanese] [English]
    (Preprint in ChemRxiv. DOI: 10.26434/chemrxiv.14245532.v1)
  9. Marcos Kunihiro Masukawa, Yukiko Okuda, *Masahiro Takinoue, “Aqueous triple-phase system in microwell array for generating uniform-sized DNA hydrogel particles”, Frontiers in Genetics, Vol.12, Article 705022, (2021). DOI: 10.3389/fgene.2021.705022
  10. Masatoshi Wakamori, *Kohki Okabe, Kiyoe Ura, Takashi Funatsu, *Masahiro Takinoue, *Takashi Umehara, “Quantification of the effect of site-specific histone acetylation on chromatin transcription rate”, Nucleic Acids Res., Vol. 48(22), pp. 12648-12659 (2020). DOI: 10.1093/nar/gkaa1050
    Press release: [Japanese] [English]
    (Preprint in bioRxiv, Preprint, (2019). DOI: 10.1101/679944)
  11. Yusuke Sato, Tetsuro Sakamoto, *Masahiro Takinoue, “Sequence-based engineering of dynamic functions of micrometer-sized DNA droplets”, Science Advances, Vol. 6, no. 23, eaba3471, (2020), DOI: 10.1126/sciadv.aba3471
    Press release: [Japanese] [English]
    (introduced in EurekAlert: “Designing DNA from scratch: Engineering the functions of micrometer-sized DNA droplets”)
    (introduced in Nanowerk: “Scientists construct ‘DNA droplets’ comprising designed DNA nanostructures”)
    (introduced in Chem-Station: “DNAナノ構造体が誘起・制御する液-液相分離”)
    (Preprint in arXiv, arXiv:1907.10252, (2019). link)
  12. Masayuki Hayakawa, Yusuke Kishino, *Masahiro Takinoue, “Collective ratchet transport generated by particle crowding under asymmetric sawtooth-shaped static potential”, Advanced Intelligent Systems, Vol. 2, article number 2000031 (2020). DOI: 10.1002/aisy.202000031
    (highlighted as a cover picture of the issue link)
    (introduced by a promotion video: link)
    (highlighted in Advanced Science News: “Over-crowding particles drives their motion” link)
    Press release: [Japanese] [English]
    (Preprint in arXiv, arXiv:1912.04659, (2019). link)
  13. Marcos K. Masukawa, Masayuki Hayakawa, *Masahiro Takinoue, “Surfactant concentration modulates the motion and placement of microparticles in an inhomogeneous electric field”, RSC Advances, vol.10, pp.8895-8904 (2020). DOI: 10.1039/D0RA00703J
    (Preprint in arXiv, arXiv:2001.01359 link)
  14. Yu Kasahara#, Yusuke Sato#, Marcos Masukawa, Yukiko Okuda, *Masahiro Takinoue, “Photolithographic shape control of DNA hydrogels by photo-activated self-assembly of DNA nanostructures”, APL Bioengineering, vol.4, article number 016109 (2020). DOI: 10.1063/1.5132929
    (# equal contribution)
    (highlighted as ‘Editor’s Pick’)
    (highlighted in Scilight: “Photolithographic method used to control the formation of DNA hydrogels”, Scilight 2020(12), 121105 (2020) link)
  15. Daisuke Ishikawa, Yuki Suzuki, Chikako Kurokawa, Masayuki Ohara, Misato Tsuchiya, Masamune Morita, Miho Yanagisawa, Masayuki Endo, Ryuji Kawano, *Masahiro Takinoue, “DNA Origami Nanoplate‐Based Emulsion with Nanopore Function”, Angew. Chem. Int. Ed., vol.58, pp.15299-15303 (2019). DOI: 10.1002/anie.201908392
    Press release: [Japanese] [English]
    (Preprint in ChemRxiv. DOI: 10.26434/chemrxiv.7046495.v1 link)
  16. Masayuki Hayakawa#, Satoshi Umeyama#, Ken H. Nagai, Hiroaki Onoe, *Masahiro Takinoue, “Controlled construction of stable network structure composed of honeycomb-shaped microhydrogels”, Life, vol.8, no.4, article number 38 (2018). DOI: 10.3390/life8040038
    (# equal contribution)
  17. Chikako Kurokawa, Kei Fujiwara, Masamune Morita, Ibuki Kawamata, Yui Kawagishi, Atsushi Sakai, Yoshihiro Murayama, Shin-ichiro M. Nomura, Satoshi Murata, *Masahiro Takinoue, *Miho Yanagisawa, “DNA cytoskeleton for stabilizing artificial cells”, Proc. Natl. Acad. Sci. USA (PNAS), vol.114, no.28, pp.7228-7233, (2017). DOI: 10.1073/pnas.1702208114
    Press release: [Japanese] [English]
  18. Shoya Yasuda, Masayuki Hayakawa, Hiroaki Onoe, *Masahiro Takinoue, “Twisting microfluidics in a planetary centrifuge”, Soft Matter, vol.13(11), 2141-2147 (2017). DOI: 10.1039/C6SM02695H
    (highlighted as the front cover picture of the issue: link)
  19. Masayuki Hayakawa, Hiroaki Onoe, Ken H. Nagai, *Masahiro Takinoue, “Influence of asymmetry and driving forces on the propulsion of bubble-propelled catalytic micromotors”, Micromachines, vol.7(12), 229 (2016). DOI: 10.3390/mi7120229
  20. Masamune Morita, Hitoyoshi Yamashita, Masayuki Hayakawa, Hiroaki Onoe, *Masahiro Takinoue, “Capillary-based Centrifugal Microfluidic Device for Size-controllable Formation of Monodisperse Microdroplets”, J. Vis. Exp., issue 108, e53860 (2016) (invited), DOI: 10.3791/53860
    (highlighted in Atlas of Science: link)
  21. Masayuki Hayakawa, Hiroaki Onoe, Ken H. Nagai, *Masahiro Takinoue, “Complex-shaped three-dimensional multi-compartmental microparticles generated by diffusional and Marangoni microflows in centrifugally discharged droplets”, Sci. Rep., vol. 6, 20793 (2016). DOI: 10.1038/srep20793
  22. Haruka Sugiura, Manami Ito, Tomoya Okuaki, Yoshihito Mori, Hiroyuki Kitahata, *Masahiro Takinoue, “Pulse-density modulation control of chemical oscillation far from equilibrium in a droplet open-reactor system”, Nature Commun., vol.7, 10212 (2016). DOI: 10.1038/ncomms10212 (Supplementary Information)
    Press release: [Japanese-1, Japanese-2] [English]
    (introduced in Chem-Station: “細胞を模倣したコンピューター制御可能なリアクター”)
  23. Manami Ito, Haruka Sugiura, Shotaro Ayukawa, Daisuke Kiga, *Masahiro Takinoue, “A Bacterial Continuous Culture System Based on a Microfluidic Droplet Open Reactor”, Anal. Sci., vol. 32, no. 1, pp. 61-66 (2016). DOI: 10.2116/analsci.32.61
    (awarded ‘Hot Article Award’ of this issue: link)
  24. Masamune Morita, Hiroaki Onoe, Miho Yanagisawa, Hiroaki Ito, Masatoshi Ichikawa, Kei Fujiwara, Hirohide Saito, *Masahiro Takinoue, “Droplet-Shooting and Size-Filtration (DSSF) Method for Synthesis of Cell-Sized Liposomes with Controlled Lipid Compositions”, ChemBioChem, vol. 16, no. 14, pp. 2029-2035 (2015). DOI: 10.1002/cbic.201500354
    (highlighted in Atlas of Science: link)
  25. Hitoyoshi Yamashita, Masamune Morita, Haruka Sugiura, Kei Fujiwara, Hiroaki Onoe, *Masahiro Takinoue, “Generation of Monodisperse Cell-Sized Microdroplets using a Centrifuge-Based Axisymmetric Co-Flowing Microfluidic Device”, J. Biosci. Bioeng., vol.119, no.4, pp.492-495 (2015). DOI: 10.1016/j.jbiosc.2014.09.018
  26. Kazuki Maeda, Hiroaki Onoe, Masahiro Takinoue, *Shoji Takeuchi, “Controlled synthesis of 3D multi-compartmental particles with centrifuge-based microdroplet formation from a multi-barrelled capillary”, Adv. Mater., vol.24, pp.1340-1346 (2012). DOI: 10.1002/adma.201102560
    (highlighted as the inside cover picture of the issue: link)
    (highlighted in Nature, vol.482, p.279 (2012), [RESEARCH HIGHLIGHTS] MATERIALS SCIENCE: “Six-faced particles”: link)
  27. Masahiro Takinoue, Hiroaki Onoe, *Shoji Takeuchi, “Fusion and fission control of picoliter-sized microdroplets for changing the solution concentration of microreactors”, Small, vol.6, pp.2374-2377 (2010). DOI: 10.1002/smll.201000945
    (highlighted as the front cover picture of the issue: link)
  28. Masahiro Takinoue, Yu Atsumi, *Kenichi Yoshikawa, “Rotary motion driven by a direct current electric field”, Appl. Phys. Lett., vol.96, 104105 (2010). DOI: 10.1063/1.3358385
  29. Masahiro Takinoue, Yue Ma, Yoshihito Mori, *Kenichi Yoshikawa, “Extended continuous-flow stirred-tank reactor (ECSTR) as a simple model of life under thermodynamically open conditions”, Chem. Phys. Lett., vol.476, pp.323-328 (2009). DOI: 10.1016/j.cplett.2009.06.018
  30. Masahiro Takinoue, Daisuke Kiga, Koh-ichiroh Shohda, *Akira Suyama, “RNA oscillator: limit cycle oscillations based on artificial biochemical reactions”, New Gener. Comput., vol.27, no.2, pp.107-127 (2009). DOI: 10.1007/s00354-008-0057-5
  31. Masahiro Takinoue, Daisuke Kiga, Koh-ichiroh Shohda, *Akira Suyama, “Design and numerical analysis of RNA oscillator”, Natural Computing (Proc. Info. Commun. Tech.), vol. 1, pp. 201-212 (2009). DOI: 10.1007/978-4-431-88981-6_18
  32. Masahiro Takinoue, Daisuke Kiga, Koh-ichiroh Shohda, *Akira Suyama, “Experiments and simulation models of a basic computation element of an autonomous molecular computing system”, Phys. Rev. E, vol.78, 041921 (2008). DOI: 10.1103/PhysRevE.78.041921
    (highlighted in Vir. J. Nan. Sci. Tech., vol.18, issue 19 (2008): link)
    (highlighted in Vir. J. Bio. Phy. Res., vol.16, issue 9 (2008): link)
  33. Masahiro Takinoue, *Akira Suyama, “Hairpin-DNA Memory Using Molecular Addressing”, Small, vol. 2, pp. 1244-1247 (2006). DOI: 10.1002/smll.200600237
  34. Masahiro Takinoue, *Akira Suyama, “Molecular reactions for a molecular memory based on hairpin DNA”, Chem-Bio Inform. J., vol. 4, pp. 93-100 (2004). DOI: 10.1273/cbij.4.93

Peer-reviewed Original Articles (collaborative work)

  1. Satofumi Kato, Yurika Ishiba, Masahiro Takinoue, *Hiroaki Onoe, “Histamine-responsive hydrogel biosensor based on aptamer recognition and DNA-driven swelling hydrogels”, ACS Applied Bio Materials, accepted, (2024). DOI: 10.1021/acsabm.4c00423
  2. *Kosuke Ino, Mana Wachi, Yoshinobu Utagawa, An Konno, Masahiro Takinoue, Hiroya Abe, *Hitoshi Shiku, “Scanning electrochemical microscopy for determining oxygen consumption rates of cells in hydrogel fibers fabricated using an extrusion 3D bioprinter”, Analytica Chimica Acta, Vol.1304, 342539, (2024). DOI: 10.1016/j.aca.2024.342539
  3. *Kohei Sato, Yume Nakagawa, Miki Mori, Masahiro Takinoue, *Kazushi Kinbara, “Transient control of lytic activity via a non-equilibrium chemical reaction system”, Nanoscale, Vol.16(13), 6442-6448, (2024). DOI: 10.1039/D3NR06626F
  4. Yoshinobu Utagawa, *Kosuke Ino, Masahiro Takinoue, *Hitoshi Shiku, “Fabrication and Cell Culture Applications of Core-Shell Hydrogel Fibers Composed of Chitosan/DNA Interfacial Polyelectrolyte Complexation and Calcium Alginate: Straight and Beaded Core Variations”, Advanced Healthcare Materials, Vol.12, 2302011, (2023). DOI: 10.1002/adhm.202302011
  5. Aoi Mameuda, Masahiro Takinoue, *Koki Kamiya, “Control of Reversible Formation and Dispersion of the Three Enzyme Networks Integrating DNA Computing”, Anal. Chem., 95(25), 9548-9554, (2023). DOI: 10.1021/acs.analchem.3c00924
  6. Koki Yoshida, Tomoki Hayashi, Masahiro Takinoue, Hiroaki Onoe, “Repeatable detection of ­Ag+ ions using a DNA aptamer‑linked hydrogel biochemical sensor integrated with microfluidic heating system”, Sci. Rep., Vol.12, article number 9692 (2022). DOI: 10.1038/s41598-022-13970-z
  7. Yoshinobu Utagawa, *Kosuke Ino, Tatsuki Kumagai, Kaoru Hiramoto, Masahiro Takinoue, Yuji Nashimoto, *Hitoshi Shiku, “Electrochemical Glue for Binding Chitosan-Alginate Hydrogel Fibers for Cell Culture”, Micromachines, Vol.13(3), 420, (2022). DOI: 10.3390/mi13030420
  8. Toshiki Akui, *Kei Fujiwara, Gaku Sato, Masahiro Takinoue, Shin-ichiro M. Nomura, Nobuhide Doi, “System concentration shift as a regulator of transcription-translation system within liposomes”, iScience, Vol.24(8), 102859, (2021). DOI: 10.1016/j.isci.2021.102859
  9. Yui Kasuo, Hiroyuki Kitahata, Yuki Koyano, Masahiro Takinoue, Kouichi Asakura, *Taisuke Banno, “Start of Micrometer-Sized Oil Droplet Motion through Generation of Surfactants”, Langmuir, Vol.35, No.41, pp.13351-13355 (2019). DOI: 10.1021/acs.langmuir.9b01722
  10. Yu Meng Ye, Masanari Nishi, Wen Qi Yang, Masahiro Takinoue, *Nobuyoshi Miyamoto, “Synthesis of Photocatalytic Niobate Nanosheet/Polymer Composite Microgel Particles through Microfluidic Approach”, Key Engineering Materials, vol.804, pp.75-82, (2019). DOI: 10.4028/www.scientific.net/KEM.804.75
  11. Hisashi Ichimiya, Masahiro Takinoue, Akito Fukui, Takeshi Yoshimura, Atsushi Ashida, Norifumi Fujimura, *Daisuke Kiriya, “Electronic Structure Mosaicity of Monolayer Transition Metal Dichalcogenides by Spontaneous Pattern Formation of Donor Molecules”, ACS Applied Materials & Interfaces, vol.11, no.17, pp.15922-15926, (2019), DOI: 10.1021/acsami.9b03367
  12. Masayuki Hayakawa, Jacopo Vialetto, Manos Anyfantakis, Masahiro Takinoue, Sergii Rudiuk, Mathieu Morel, *Damien Baigl, “Effect of Moderate Magnetic Fields on the Surface Tension of Aqueous Liquids: a Reliable Assessment”, RSC Advances, vol.9, pp.10030-10033, (2019). DOI: 10.1039/C9RA00849G
  13. Hisashi Ichimiya, Masahiro Takinoue, Akito Fukui, Kohei Miura, Takeshi Yoshimura, Atsushi Ashida, Norifumi Fujimura, *Daisuke Kiriya, “Tuning Transition-Metal Dichalcogenide Field-Effect-Transistor by Spontaneous Pattern Formation of an Ultrathin Molecular Dopant Film”, ACS Nano, vol.12, no.10, pp.10123-10129 (2018). DOI: 10.1021/acsnano.8b04914
  14. Kenichi Shibata, Takashi Amemiya, Yu Kawakita, Kohei Obase, Kiminori Itoh, Masahiro Takinoue, Satoshi Nakata, Tomohiko Yamaguchi, “Promotion and inhibition of synchronous glycolytic oscillations in yeast by chitosan”, The FEBS Journal, vol.285, pp.2679–2690, (2018). DOI: 10.1111/febs.14513
  15. Yusuke Sato, Masayuki Endo, Masamune Morita, Masahiro Takinoue, Hiroshi Sugiyama, Satoshi Murata, Shin-ichiro M. Nomura, *Yuki Suzuki, “Environment-dependent Self-assembly of DNA Origami Lattices on Phase-separated Lipid Membranes”, Advanced Materials Interface, vol.5, no.14, article number 1800437 (2018). DOI: 10.1002/admi.201800437
  16. Jacopo Vialetto, Masayuki Hayakawa, Nikita Kavokine, Masahiro Takinoue, Subramanyan Namboodiri Varanakkottu, Sergii Rudiuk, Manos Anyfantakis, Mathieu Morel, *Damien Baigl, “Magnetic actuation of discrete liquid entities with a deformable paramagnetic liquid substrate”, Angew. Chem. Int. Ed., vol.56(52), pp.16565-16570, (2017). DOI: 10.1002/anie.201710668
    (selected as a very important paper (VIP))
    (highlighted as a back cover of the issue: link)
  17. Hiroki Yasuga, Kosuke Inoue, Ryuji Kawano, Masahiro Takinoue, Toshihisa Osaki, Koki Kamiya, Norihisa Miki, *Shoji Takeuchi, “Serial DNA Relay in DNA Logic Gates by electrical Fusion and Mechanical Splitting of Droplets”, PLOS ONE, vol.12(7), e0180876, (2017). DOI: 10.1371/journal.pone.0180876
  18. Masayuki Ohara, Masahiro Takinoue, *Ryuji Kawano, “Nanopore Logic Operation with DNA to RNA Transcription in a Droplet System”, ACS Synth. Biol., vol.6 no.7, pp. 1427–1432, (2017). DOI: 10.1021/acssynbio.7b00101
    Press release: [Japanese-1, Japanese-2] [English]
  19. Satoru Yoshida, Masahiro Takinoue, *Hiroaki Onoe, “Compartmentalized spherical collagen microparticles for anisotropic cell culture microenvironments”, Advanced Healthcare Materials, vol.6, 1601463 (2017). DOI: 10.1002/adhm.201601463
    (highlighted as the frontispiece of the issue: link)
    (highlighted in Advanced Science News: link)
  20. Satoru Yoshida, Masahiro Takinoue, Eiji Iwase, *Hiroaki Onoe, “Dynamic transformation of self-assembled structures using anisotropic magnetized hydrogel microparticles”, J. Appl. Phys., vol.120, 084905 (2016). DOI: 10.1063/1.4961422
  21. Hiroki Yasuga, Ryuji Kawano, Masahiro Takinoue, Yutaro Tsuji, Toshihisa Osaki, Koki Kamiya, Norihisa Miki, *Shoji Takeuchi, “Logic Gate Operation by DNA Translocation through Biological Nanopores”, PLOS ONE, vol. 11, e0149667 (2016). DOI: 10.1371/journal.pone.0149667
  22. Kazuki Maeda, Hiroaki Onoe, Masahiro Takinoue, *Shoji Takeuchi, “Observation and Manipulation of a Capillary Jet in a Centrifuge-based Droplet Shooting Device”, Micromachines, vol. 6, pp. 1526-1533 (2015). DOI: 10.3390/mi6101436
  23. Takashi Amemiya, Kouhei Obase, Naoki Hiramatsu, Kiminori Itoh, Kenichi Shibata, Masahiro Takinoue, Tetsuya Yamamoto, Tomohiko Yamaguchi, “Collective and individual glycolytic oscillations in yeast cells encapsulated in alginate microparticles”, Chaos, vol.25, 064606 (2015). DOI: 10.1063/1.4921692
  24. Hiroaki Onoe, Kiichi Inamori, Masahiro Takinoue, *Shoji Takeuchi, “Centrifuge-based cell encapsulation in hydrogel microbeads using sub-microliter sample solution”, RSC Advances, vol.4, pp.30480–30484 (2014). DOI: 10.1039/C4RA02773F
  25. Tomo Kurimura, Masatoshi Ichikawa, Masahiro Takinoue, *Kenichi Yoshikawa, “Back-and-forth micromotion of aqueous droplets in a DC electric field”, Phys. Rev. E, vol.88, 042918 (2013). DOI: 10.1103/PhysRevE.88.042918
  26. James Stapleton, Kei Endo, Yoshihiko Fujita, Karin Hayashi, Masahiro Takinoue, *Hirohide Saito, *Tan Inoue, “Feedback control of protein expression in mammalian cells by tunable synthetic translational inhibition”, ACS Synth. Biol., vol.1, no.3, pp. 83-88 (2012). DOI: 10.1021/sb200005w
    (Top 10 Most Read Articles of 2012 in ACS synthetic biology: link)
  27. Daisuke Kiriya, Masato Ikeda, Hiroaki Onoe, Masahiro Takinoue, Harunobu Komatsu, Yuto Shimoyama, Itaru Hamachi, *Shoji Takeuchi, “Meter-Long and Robust Supramolecular Strands Encapsulated in Hydrogel Jackets”, Angew. Chem. Int. Ed., vol.51, no.7, pp.1553-1557 (2012). DOI: 10.1002/anie.201104043
    (highlighted as the front cover picture of the issue: link)
  28. Ryoji Sekine, Masayuki Yamamura, Shotaro Ayukawa, Kana Ishimatsu, Satoru Akama, Masahiro Takinoue, Masami Hagiya, *Daisuke Kiga, “Tunable synthetic phenotypic diversification on Waddington’s landscape through autonomous signaling”, Proc. Natl. Acad. Sci. USA (PNAS), vol.108, no.44, pp.17969-17973 (2011). DOI: 10.1073/pnas.1105901108
  29. Ryuji Kawano, Toshihisa Osaki, Hirotaka Sasaki, Masahiro Takinoue, Satoko Yoshizawa, *Shoji Takeuchi, “Rapid Detection of a Cocaine-Binding Aptamer Using Biological Nanopores on a Chip”, J. Am. Chem. Soc., vol.133, no.22, pp.8474-8477 (2011). DOI: 10.1021/ja2026085
  30. Shio Inagaki, Li Liu, Masahiro Takinoue, *Kenichi Yoshikawa, “Cleavage pattern of DNA caused by endonuclease: Theoretical modeling and experimental verification”, Appl. Phys. Lett., vol.96, 063701 (2010). DOI: 10.1063/1.3304790
    (highlighted in Vir. J. Bio. Phy. Res., vol.19, issue 4 (2010): link)
  31. Tetsuro Kitajima, Masahiro Takinoue, Koh-ichiroh Shohda, *Akira Suyama, “Design of Code Words for DNA Computers and Nanostructures with Consideration of Hybridization Kinetics”, Lect. Notes Comput. Sc., vol.4848, pp.119-129 (2008). DOI: 10.1007/978-3-540-77962-9_12
  32. Yusuke Ogura, Taro Beppu, Masahiro Takinoue, Akira Suyama, *Jun Tanida, “Control of DNA Molecules on a Microscopic Bead Using Optical Techniques for Photonic DNA Memory”, Lect. Notes Comput. Sc., vol. 3892, pp. 213-223 (2006). DOI: 10.1007/11753681_17

Review Articles

  1. Yutaka Hori, Takashi Nakakuki, Masahiro Takinoue, “Preface: Special Issue on Molecular Cybernetics: Theory and Practice Toward Chemical AI”, New Gener. Comput. (2024). DOI: 10.1007/s00354-024-00264-3
  2. *Yusuke Sato, *Masahiro Takinoue, “Pioneering artificial cell-like structures with DNA nanotechnology-based liquid-liquid phase separation”, Biophysics and Physicobiology, e210010, (2024), DOI: 10.2142/biophysico.bppb-v21.0010
  3. *Katarzyna P. Adamala, *Marileen Dogterom, *Yuval Elani, *Petra Schwille, *Masahiro Takinoue, *T-Y Dora Tang, “Present and future of synthetic cell development”, Nature Reviews Molecular Cell Biology vol.25, pp.162-167, (2023), DOI: 10.1038/s41580-023-00686-9 , [link to article]
  4. *Masahiro Takinoue, “DNA droplets for intelligent and dynamical artificial cells: from the viewpoint of computation and non-equilibrium systems”, Interface Focus 13, 20230021, (2023), DOI: 10.1098/rsfs.2023.0021
  5. Hirotake Udono, Jing Gong, Yusuke Sato, *Masahiro Takinoue, “DNA Droplets: Intelligent, Dynamic Fluid”, Adv. Biol., 7, 2200180, (2023), DOI: 10.1002/adbi.202200180
    (highlighted as the front cover picture of the issue: link)
  6. *Masahiro Takinoue, *Ryuji Kawano, “Editorial on the Special Issue on Recent Advances of Molecular Machines and Molecular Robots”, Micromachines, Vol.11(12), 1031, (2020), DOI: 10.3390/mi11121031
  7. *Yusuke Sato, *Masahiro Takinoue, “Creation of artificial cell-like structures promoted by microfluidics technologies”, Micromachines, Vol.10(4), 216, (2019), DOI: 10.3390/mi10040216
  8. *Taro Toyota, Taisuke Banno, Sachiko Nitta, Masahiro Takinoue, Tomonori Nomoto, Yuno Natsume, Shuichi Matsumura, Masanori Fujinami, “Molecular Building Blocks and Their Architecture in Biologically/Environmentally Compatible Soft Matter Chemical Machinery”, J. Oleo Sci., vol.63, no.11, pp.1085-1098 (2014). DOI: 10.1039/C4RA02773F
  9. Shotaro Ayukawa, Masahiro Takinoue, *Daisuke Kiga, “RTRACS: A Modularized RNA-Dependent RNA Transcription System with High Programmability”, Acc. Chem. Res., vol.44, no.12, pp. 1369-1379 (2011). DOI: 10.1021/ar200128b
  10. Masahiro Takinoue, *Shoji Takeuchi, “Droplet microfluidics for the study of artificial cells”, Anal. Bioanal. Chem., vol. 400, pp. 1705-1716 (2011). DOI: 10.1007/s00216-011-4984-5

Peer-reviewed Proceedings

  1. Yusuke Sato, Tetsuro Sakamoto, Masahiro Takinoue, “Creation of DNA Microdroplets based on Phase Transition and Sequence Design”, Proc. microTAS, pp.16-17, (2019).
  2. Masayuki Hayakawa, Yusuke Kishino, Masahiro Takinoue, “The Collective Transport of Microparticles under an Asymmetric Electric Field”, Proc. MEMS, pp.43-46, (2019).
  3. Marcos K. Masukawa, Masayuki Hayakawa, Masahiro Takinoue, “Electric control of microparticles based on surfactant adsorption: prospective actuation of soft robots”, Proc. microTAS, pp.352-354 (M001a), (2018).
  4. Masamune Morita, Shin-ichiro M. Nomura, Satoshi Murata, Miho Yanagisawa, Masahiro Takinoue, “Formation of DNA micro-skeleton structures in water-in-oil microdroplets”, Proc. microTAS, pp.159-160 (3C1-4), (2017).
  5. Daisuke Ishikawa, Yuki Suzuki, Chikako Kurokawa, Masayuki Ohara, Masamune Morita, Miho Yanagisawa, Ryuji Kawano, Masayuki Endo, Masahiro Takinoue, “Self-Assembled Microcapsule of Amphiphilic Janus DNA Nanoplates at the Water-Oil Interface”, Proc. microTAS, pp.116-117 (2C3-2), (2016).
  6. Haruka Sugiura, Manami Ito, Hiroyuki Kitahata, Yoshihito Mori, Masahiro Takinoue, “Droplet-based Open Microreactor Based On Droplet Fusion-fission Inspired By Endo/exocytosis”, Proc. microTAS, pp.126-128 (2A2-2), (2015)
  7. Shoya Yasuda, Masayuki Hayakawa, Hiroaki Onoe, Masahiro Takinoue, “Generation Of Multi-helical Microfibers And Marble Microbeads Using Orbital-rotation And Axial-spin Centrifuge”, Proc. microTAS, pp.1163-1165 (W.288e) (2015).
  8. Masamune Morita, Hiroaki Onoe, Miho Yanagisawa, Kei Fujiwara, Hirohide Saito, Masahiro Takinoue, “The rapid synthesis of cell-sized liposomes by centrifuge-based microfluidic device”, Proc. microTAS, pp.336-338 (2014).
  9. Masayuki Hayakawa, Hiroaki Onoe, Ken H. Nagai, Masahiro Takinoue, “Rapid formation of anisotropic non-spherical hydrogel microparticles with complex structures using a tabletop centrifuge-based microfluidic device”, Proc. microTAS, pp.630-632 (2013)
  10. Masahiro Takinoue, Hiroaki Onoe, Daisuke Kiriya, Shoji Takeuchi, “Propelling Microobjects Using A Stationary DC Voltage”, Proc. MEMS, pp. 1177-1180 (2011). DOI:10.1109/MEMSYS.2011.5734641 link
  11. Masahiro Takinoue, Hiroaki Onoe，Shoji Takeuchi, “Solution concentration change of picoliter-sized microdroplet reactors”, Proc. microTAS, pp. 1829-1831 (2010)
  12. Masahiro Takinoue, Takahiko Endoh, Akira Suyama, “Amorphous hairpin DNA memory for assembling nanoparticles/biomacromolecules”, Proc. FNANO, pp. 140-141 (2006).

日本語総説・解説・紀要等 (Japanese Review Articles and Proceedings)

  1. 瀧ノ上正浩, “物理学や情報科学の観点から見た生命科学研究”, 現代化学, 1月号, 6 (2024).
  2. 石川大輔, 瀧ノ上正浩, “DNAオリガミって何？”, 現代化学, 6月号, 17-21 (2023).
  3. 佐藤 佑介, 瀧ノ上 正浩, “相分離DNA液滴によるパターン形成と情報処理”, 「生物物理」誌, Vol.62, No.6, pp.345-347, (2022). DOI: 10.2142/biophys.62.345
  4. 小宮 健, 瀧ノ上 正浩, 小長谷 明彦, “先端科学技術領域の研究者が ELSI を考えるということ”, 研究 技術 計画, Vol. 37, No. 3, pp.310-324, (2022)
  5. 丸山 智也, 瀧ノ上 正浩, “ナノ・マイクロスケールのDNAモダリティ 〜分子情報で制御される相分離DNA液滴のダイナミクス〜”, 月刊「細胞」, 10月号, (2022)
  6. 佐藤 佑介, Jing Gong, 瀧ノ上 正浩, “自律型分子コンピューティングの現状と未来”, 高分子, Vol. 71, No. 10, pp.522-524, (2022)
  7. 村田 智, 葛谷 明紀, 藤原 慶, 平 順一, 川又 生吹, 佐藤 佑介, 瀧ノ上 正浩, 野村M. 慎一郎, 角五 彰, 堀 豊, 安部 桂太, “大学の枠を越えたオンライン生体分子デザインコンペティションの取り組み”, 工学教育, Vol.69(4), pp.4_31-4_39, (2021). DOI: doi.org/10.4307/jsee.69.4_31
  8. 瀧ノ上正浩, “天然にないものの生物物理学”, 「生物物理」誌, 巻頭言, Vol.60, No.5, (2020) DOI: 10.2142/biophys.60.263 [The Biophysics of ʻOrganisms Not Existing in Natureʼ (English translation)]
  9. 佐藤 佑介, 瀧ノ上 正浩, “DNA ナノテクノロジーによる細胞型分子ロボットの構築”, 特集ナノ・マイクロバイオマシンの現状と将来-3, IEEJ Journal (電気学会誌), Vol.140, No.9, (2020) DOI: 10.1541/ieejjournal.140.582
  10. Marcos K. Masukawa, Masayuki Hayakawa, Masahiro Takinoue, “Effect of surfactant on the electric manipulation of microparticles”，化学とマイクロ・ナノシステム, vol.19, no.1, pp.21-22 (2020)
  11. 佐藤 佑介, 瀧ノ上 正浩, “配列設計と相転移に基づいた DNA マイクロ構造の構築と制御”，化学とマイクロ・ナノシステム, vol.18, no.1, pp.24-27, (2019)
  12. *瀧ノ上正浩, “細胞を模倣した分子ロボットのためのコンピュー タ制御型マイクロリアクタ”, 特集：分子システムのデザインと制御 〜分子ロボティクスにおける制御工学の役割〜, 「計測と制御」Vol.58, No.4, pp.276-280, (2019). DOI: 10.11499/sicejl.58.276
  13. 黒川知加子, *柳澤実穂, *瀧ノ上正浩, “骨格で支えられた頑丈な人工細胞〜DNAナノテクノロジーによる精密設計”, 月刊化学, vol.73, no.1, pp.40-43 (2018). link
  14. 瀧ノ上正浩, “生体内で働く分子ロボットの実現へ：情報媒体としてのDNA分子とDNAコンピューティング”, 情報管理(JST), vol. 60, no. 9, pp. 629-640 (2017). DOI: 10.1241/johokanri.60.629
  15. 瀧ノ上正浩, “物質科学のフロンティアとしての生命システム研究『分子ロボティクス』”, 東工大・産学連携メールマガジン, 第158号 (2017年10月号) (2017). link
  16. JST CRDS 俯瞰ワークショップ報告書 ナノテクノロジー・材料分野 領域別分科会「バイオ・ライフとナノテク・材料の融合領域」／CRDS-FY2016-WR-10 (2017). (瀧ノ上・「人工細胞」分野執筆) link
  17. 瀧ノ上正浩, “バイオソフトマター液滴のマイクロ流体工学による分子ロボティクス”, Molecular Robotics News Letter, No.21 (最終号), p.3 (2017). link
  18. 佐藤佑介, 瀧ノ上正浩, *野村 M. 慎一郎, “BIOMOD: 分子ロボティクスの次世代育成大会”, 生物物理, vol. 56, no. 5, pp. 290-292 (2016). link
  19. 石川大輔, 瀧ノ上正浩, “連載「DNAナノテクノロジー」―構造をつくり，計算し，ナノロボットを動かす―：第2回ナノテク材料としてのDNA”, 現代化学, No.5, pp.48-53 (2016).
  20. 石川大輔, 瀧ノ上正浩, “ハイブリッド型分子ロボット〜コンピュータ制御された人工細胞の構築〜”, Molecular Robotics News Letter, No.16, p.9 (2016). link
  21. 森田雅宗, 杉浦晴香, 瀧ノ上正浩, “Droplet Microfluidics による人工細胞モデルの構築”, 日本流体力学会誌「ながれ」vol.34, no.1, pp.11-14 (2015). link
  22. 安田翔也, 早川雅之，瀧ノ上正浩, “二重らせん構造を有するマイクロゲルファバーの生成手法の構築”，化学とマイクロ・ナノシステム, vol.13, no.2, pp.40-41 (2014)
  23. 早川雅之，尾上弘晃，永井健，瀧ノ上正浩, “マランゴニ流と拡散流を利用した複雑形状マイクロハイドロゲル粒子高速生成システムの開発”，化学とマイクロ・ナノシステム, vol. 13, no. 1, pp.29-30 (2014)
  24. 瀧ノ上正浩, “マイクロ流体工学による非平衡人工細胞”, 生体の科学・ 増大特集「生命動態システム科学」, vol.65, no.5, pp.502-503 (2014). link
  25. 瀧ノ上正浩, “細胞に見立てた水滴のふるまいから，生命の物理的な原理を探る”（生命の最先端研究・生命の物理学(1)）, Newton別冊「やさしくわかる 生命の科学」, pp.102-103 (2014)．
  26. 瀧ノ上正浩, “細胞スケールの非平衡系における自己秩序化：自律運動と自律振動反応”, 高分子 vol.63, no.6, pp.388-389 (2014).
  27. 森田雅宗, 杉浦晴香, 瀧ノ上正浩, “マイクロ流体工学をベースとした非平衡人工細胞の構築”, 日本化学会生体機能関連化学部会ニュースレター, Vol.28, No.4, pp.3-6 (2014). link
  28. 早川雅之，尾上弘晃，永井健，瀧ノ上正浩, “異方性をもつ複雑形状マイクロハイドロゲル粒子作製システムの開発”，電気学会研究会資料（バイオ・マイクロシステム研究会），pp.41-44，No.BMS-13-043 (2013)
  29. 森田雅宗, 瀧ノ上正浩, “動的な細胞サイズ分子ロボットのための ボディを創る!”, Molecular Robotics News Letter, No.4, p.8 (2013). link
  30. 瀧ノ上正浩, “細胞に見立てた水滴のふるまいから，生命の物理的な原理を探る”（特集「生命とは何か」・Part3 生命をつくる最先端研究・(1) 生命の物理学）, Newton, vol.33, no.7, pp.62-63, 2013年7月号.
  31. 瀧ノ上正浩, “コラム：複雑な非対称性をもつマイクロ粒子”, パリティ (丸善), 2012年, 5月号, p. 20
  32. 瀧ノ上正浩（訳）, Amy Q. Shen, Perry Cheung （著）, “閉じ込め系におかれた複雑流体の可能性”, パリティ (丸善), 2012年, 5月号, pp. 12-20
  33. 瀧ノ上正浩, “Opinion研究の現場から・第22回「新しいステージで世界にチャレンジする -BIOMODの場合」”, 実験医学（羊土社）, Vol.30, No.6 (4月号), p.1006 (2012). link
  34. 瀧ノ上正浩（インタビュー協力）, “自律性を備えた人工細胞を創出し、生命と物質の境界を探る”, Nature Digest, vol.9, no.2, pp.26-27 (2012). DOI: 10.1038/ndigest.2012.120226
  35. 瀧ノ上 正浩, 吉川研一, “ミクロ液滴を直流電圧で動かす：往復・回転運動（東海支部企画・化学非平衡ならではの動きもの）”, 化学と教育 (日本化学会), vol.59, no.1, pp.4-7 (2011).
  36. 齊藤 博英, 野村 M. 慎一郎, 瀧ノ上 正浩, “iGEM (国際合成生物学コンテスト) 参戦記”, 実験医学 (羊土社), 2009年, 1月号, pp. 51-52,「News & Hot Paper Digest」コーナー.
  37. 瀧ノ上 正浩, 吉川研一, “細胞の実空間モデル：生命現象への物理からのアプローチ”, パリティ (丸善), 2009年, 1月号, pp. 70-72, 「物理科学、この1年」コーナー.

Books and Book Chapters

  1. 瀧ノ上 正浩, “生命起源の事典” (薮田 ひかる・川村 邦男・赤沼 哲史・木賀 大介・根本 直人・古川 善博・横堀 伸一 編), 1-18 非平衡熱力学: つねに変化する世界, 38-39, 朝倉書店, (2024/05/01), 312ページ, ISBN 978-4-254-16078-9
  2. Masahiro Takinoue, “Manipulation technologies for molecular robots”, In: Ang M.H., Khatib O., Siciliano B. (eds) Encyclopedia of Robotics. Springer, Berlin, Heidelberg. DOI: 10.1007/978–3-642-41610-1_193-1
  3. 佐藤 佑介, 瀧ノ上 正浩, “相分離生物学の全貌” (白木 賢太郎 編), 第Ⅴ部　相分離テクノロジー, 49.DNAナノテクノロジーと相分離, pp.244-248, 現代化学増刊 46, 東京化学同人, (2020/11/16), 416ページ, ISBN 9784807913466 [link]
  4. 瀧ノ上正浩, “分子ロボティクス概論 〜分子のデザインでシステムを作る〜”（村田 智 編）, 第2章 分子ロボットのシステム化技術, 2.7ドロップレットマイクロ流体技術による分子ロボティクスの展開, pp.98-106, CBI eBook, 情報計算化学生物学会 (CBI 学会) 出版, (2019/05/02), 301ページ, ISBN 978-4990907648 [link] (Open Access)
  5. 瀧ノ上正浩, “バイオイノベーションに向けて～バイオテクノロジーの新技術からの新しい視点～”, 第４章・第５節 合成生物学のためのプラットフォームとしてのMicrofluidics研究, CMC 出版, pp.189-196, (2019/03/25), 258ページ, ISBN 978-4-7813-1411-2
  6. 瀧ノ上正浩, “人工細胞の創製とその応用 (Promising Construction and Applications of Artificial Smart-Cells)”, 第2章人工膜創製技術：第5節バイオソフトマターの物理工学に基づく非平衡開放系の人工細胞の構築と制御, シーエムシー出版, (2017/01/31), 215ページ, ISBN 978-4-7813-1233-0 [link]
  7. 栗村朋, 市川正敏, 瀧ノ上正浩, “材料表面の親水・親油の評価と制御設計”, 第5章 界面自由エネルギーから運動エネルギーへの変換：第6節 静電位によって駆動される微小水滴, テクノシステム,(2016/07/27), 600ページ, ISBN 978-4-924728-76-9 [link]
  8. 瀧ノ上正浩・他 (共著), 分子ロボティクス研究会 (編), “DNA分子デザインのすべて～BIOMOD虎の巻（2016年度版）”, CBI eBook Series No. 2, 情報計算化学生物学会 (CBI 学会) 出版, (2016/04/15), 224ページ, ISBN 978-4-9903708-9-3 [link] (Open Access)
  9. 小宮健, 瀧ノ上正浩, 田中文昭, 浜田省吾, 村田智 (著), 萩谷昌己, 横森貴 (編), “DNAナノエンジニアリング (ナチュラルコンピューティング・シリーズ第2巻)”, 近代科学社, (2011/4/30), 202ページ, ISBN: 978-4-7649-0402-6 [link]
  10. Masanori Arita, Masami Hagiya, Masahiro Takinoue, Fumiaki Tanaka (Grzegorz Rozenberg, Thomas Back, Joost N. Kok Eds.), Section: “DNA Memory”, Handbook of Natural Computing, Springer, 1st Ed. (2010/11/29), 1700 pages, ISBN: 978-3-540-92909-3 [link]