Publications

Peer-reviewed Journal Articles and Books

  • Shogo Hamada. 「人工」代謝系をもつDNAゲルロボットの開発 (Development of DNA Gel Robots with “Artificial” Metabolism). 生物物理 64(1) 17-20 (2024). DOI: 10.2142/biophys.64.17
  • Richard J Archer, Shogo Hamada, Ryo Shimizu, Shin-Ichiro M Nomura. Scalable Synthesis of Planar Macroscopic Lipid-Based Multi-Compartment Structures. Langmuir (2023). DOI: 10.1021/acs.langmuir.2c02859
  • Yehudah A.Pardo, Kenneth G. Yancey, David S. Rosenwasser, David M.Bassen, Jonathan T. Butcher, Jenny E. Sabin, Minglin Ma, Shogo Hamada, Dan Luo. Interfacing DNA hydrogels with ceramics for biofunctional architectural materials. Materials Today (2022). DOI: 10.1016/j.mattod.2021.10.029
  • Shogo Hamada. Molecular Robotics. In: Ang M.H., Khatib O., Siciliano B. (eds) Encyclopedia of Robotics. Springer, Berlin, Heidelberg (2021). DOI: 10.1007/978-3-642-41610-1_189-1
  • Renkuan Liao, Feng Zhao, Shogo Hamada, Peiling Yang, Huan Xu, Dan Luo, Dayong Yang. DNA-based engineering system for improving human and environmental health: Identification, detection, and treatment. Nano Today 35, 100958 (2020). DOI: 10.1016/j.nantod.2020.100958
  • Dong Wang, Jinhui Cui, Mingzhe Gan, Zhaohui Xue, Jing Wang, Peifeng Liu, Yue Hu, Yehudah Pardo, Shogo Hamada, Dayong Yang, Dan Luo. Transformation of Biomass DNA into Biodegradable Materials from Gels to Plastics for Reducing Petrochemical Consumption. J. Am. Chem. Soc., 142(22), 10114–10124 (2020). DOI: 10.1021/jacs.0c02438
  • Shogo Hamada* and Dan Luo. Enzyme-based fabrication of physical DNA hydrogels: new materials and applications. Polymer Journal. Published online : 22 April (2020). DOI: 10.1038/s41428-020-0340-y [* First and co-corresponding author]
  • Thomas Derrien, Shogo Hamada, Max Zhou, Detlef-Matthias Smilgies, Dan Luo. Three dimension nanoparticle assemblies with tunable plasmonics via a layer-by-layer process. Nano Today, 30, 100823 (2020). DOI: 10.1016/j.nantod.2019.100823
  • Shogo Hamada*, Kenneth Gene Yancey, Yehudah Pardo, Mingzhe Gan, Max Vanatta, Duo An, Yue Hu, Thomas L. Derrien, Roanna Ruiz, Peifeng Liu, Jenny Sabin, Dan Luo. Dynamic DNA material with emergent locomotion behavior powered by artificial metabolism. Science Robotics, 4(29), eaaw3512 (2019). DOI: 10.1126/scirobotics.aaw3512 [* First and co-corresponding author; Cover Article]
    • Featured in Nature Electronics (Research Highlights)
  • David Rosenwasser, Shogo Hamada, Dan Luo and Jenny E. Sabin. POLYBRICK 3.0: Live Signatures Through DNA Hydrogels and Digital Ceramics. Int. J. of Rapid Manufacturing, 7(2-3) 203-218 (2018). DOI: 10.1504/IJRAPIDM.2018.092909
  • Daisuke Kandatsu, Keitel Cervantes-Salguero, Ibuki Kawamata, Shogo Hamada, Shin-Ichiro M Nomura, Kenzo Fujimoto, Satoshi Murata. Reversible Gel‐Sol Transition of Photo‐Responsive DNA Gel. ChemBioChem 17(12) 1118-1121 (2016). DOI: 10.1002/cbic.201600088
  • Junghoon Kim, Junwye Lee, Shogo Hamada, Satoshi Murata and Sung Ha Park. Self-replication of DNA rings. Nature Nanotechnology 10, 528-533 (2015). DOI: 10.1038/nnano.2015.87
  • Keitel Cervantes-Salguero, Shogo Hamada, Shin-ichiro M. Nomura, and Satoshi Murata. Polymorphic Ring-Shaped Molecular Clusters Made of Shape-Variable Building Blocks. Nanomaterials 5(1), 208-217 (2015). DOI: 10.3390/nano5010208
  • Dayong Yang, Mark R. Hartman, Thomas L. Derrien, Shogo Hamada, Duo An, Kenneth G. Yancey, Ru Cheng, Minglin Ma, and Dan Luo. DNA Materials: Bridging Nanotechnology and Biotechnology. Acc. Chem. Res., (2014). DOI: 10.1021/ar5001082
  • Mark Richard Hartman, Roanna Clarissa Ruiz, Shogo Hamada, Chuanying Xu, Kenneth Gene Yancey, Yan Yu, Wei Han and Dan Luo. Point-of-care nucleic acid detection using nanotechnology. Nanoscale 5, 10141-10154 (2013). DOI: 10.1039/C3NR04015A [Review]
  • Junwye Lee, Shogo Hamada, Si Un Hwang, Rashid Amin, Junyoung Son, Sreekantha Reddy Dugasani, Satoshi Murata & Sung Ha Park. Quantitative analysis of molecular-level DNA crystal growth on a 2D surface. Scientific Reports 3, 2115 (2013). doi:10.1038/srep02115.
  • Hamada, S., Murata, S. Theoretical Model of Substrate-Assisted Self-Assembly of DNA Nanostructures. RSC Advances 2, 7406-7412 (2012). DOI:10.1039/C2RA20764H. Lee, J., Hamada, S., Amin, R., Kim, S., Kulkarni, A., Kim, T., Roh, Y., Murata, S. and Park, S. H. Size-Controllable DNA Rings with Copper-Ion Modification. Small. 8(3), 374–377 (2012). doi: 10.1002/smll.201101561
  • Hamada, S., Murata, S. Algorithmic Self-assembly of Single-duplex DNA Nanostructures. International Journal of Unconventional Computing. 7(1-2), 25-37 (2011).
  • Hamada, S., Murata, S. Substrate-Assisted Assembly of Interconnected Single-Duplex DNA Nanostructures. Angewandte Chemie International Edition. 48(37), 6820–6823 (2009). DOI: 10.1002/ange.200902662
  • Ayukawa, S., Kobayashi, A., Nakashima, Y., Takagi, H., Hamada, S., Uchiyama, M., Yugi, K., Murata, S., Sakakibara, Y., Hagiya, M., Yamamura, M., Kiga, D. SYANAC: SYnthetic biological Automaton for Noughts And Crosses. IET Synthetic Biology. 1(1-2) 64-67 (2007). DOI: 10.1049/iet-stb:20070003
    • Related Conference Proceedings: Ayukawa, S., Kobayashi, A., Nakashima, Y., Takagi, H., Hamada, S., Uchiyama, M., Yugi, K., Murata, S., Sakakibara, Y., Hagiya, M., Yamamura, M., Kiga, D. Construction of a genetic AND gate under a new standard for assembly of genetic parts. BMC Genomics 11(Suppl 4):S16 (2010). DOI: 10.1186/1471-2164-11-S4-S16

Commentary Articles

  • Hamada, S., Tan, S. J., Luo, D. Nanoparticle crystallization: DNA-bonded ‘atoms’. Nature Materials. 13(2) 121-122 (2014). DOI: 10.1038/nmat3876
  • Murata, S., Hamada, S. DNA Tiles. Journal of the Robotics Society of Japan. 28(10), (2010).

Textbooks

Magazine

  • 浜田 省吾 「DNAナノテクノロジー(5): さまざまなDNAナノ構造」 現代化学（東京化学同人）2016年8月号 (No. 545)
  • Commentary series on DNA Nanotechnology (5): “Varieties of DNA nanostructures”. Chemistry Today (Japanese), No. 545. Tokyo Kagaku-Dojin. Aug. 2016.

Essay

  • Hamada, S. Morphological Computation at the Molecular Scale, Opinions and Outlooks on Morphological Computation [e-book] (2014). ISBN-13: 978-3-033-04515-6

Art

  • Jenny Sabin, Dan Luo, Shogo Hamada. Polybrick. Mutations / Créations, Centre Pompidou, Paris, France (2017).

Conferences

Invited

  • Hamada, S. Mesoscale DNA-based Machines Powered by Artificial Metabolism. The 59th Annual Meeting of the Biophysical Society of Japan. 2021/11/25
  • Hamada, S. Towards “life-like” molecular robotics. ACSE Research Seminar, The University of Sheffield. 2021/11/17
  • Hamada, S. Development of slime-like, DNA-based machines powered by artificial metabolism. Cell Synth 14.0 meeting. (「細胞を創る」研究会14.0) 2021/11/05
  • Hamada, S. Dawn of “life-like” molecular robotics. Springer Nature Applied Sciences Webinar. 2021/05/12
  • Hamada, S. Dynamic DNA-based machines powered by artificial metabolism. International Conference on Manipulation, Automation and Robotics at Small Scales. (Helsinki, Finland) 2019/07/02
  • Hamada, S. DNA Hydrogel: towards realization of “slime-like” molecular robots. Tokyo Tech Symposium “Towards the Next Stages of Robotics”. (Tokyo, Japan) 2015/01/06
  • Hamada, S. Macroscale DNA Structures toward Molecular Robotics. The 3rd Molecular Robotics Workshop. (Iwanuma, Japan) 2014/03/16
  • Hamada, S. Substrate-Assisted Self-Assembly of DNA Nanostructures. 1st DNA Nanotechnology Forum. (Daejeon, Korea) 2012/12/17
  • Hamada, S., Murata, S. A Preliminary Study on Colloidal Crystallization of DNA Motifs. 9th Annual Conference Foundations of Nanoscience (FNANO12). 2012/04/17

Contributed

  • Hamada, S. Creating a self-regeneratable material by DNA. 5th Nano Today Conference. (Waikoloa, HI) 2017/12/10
  • Hamada, S., Murata, S. Theoretical Model of Substrate-Assisted Self-Assembly of DNA Motif. 17th International Conference on DNA Computing and Molecular Programming. 2011/09/22
  • Hamada, S., Murata, S. Extending the geometrical design of DNA nanostructures. Fourth International Workshop on Natural Computing (IWNC09). 2009/09/23
    • Proceedings: Hamada, S., Murata, S. Extending the Geometrical Design of DNA Nanostructures. Natural Computing, PICT (Springer). 2(3), 157-164 (2010).

Domestic Conference/Symposium (Oral Presentation)

  • 浜田省吾「DNAナノ構造の基板成長メカニズム」分子ロボティクス研究会 2010/09/23
  • 浜田省吾, 村田 智 「自己集合モチーフによる DNA ナノ構造の作製技術 ～DNA タイルとその周辺～」計測自動制御学会 システム・情報部門学術講演会(SSI09) 2009/11/26
  • 浜田省吾「T字型核酸分岐を用いた各種DNAナノ構造の作製」科研費特定領域研究「高次系分子科学」第7回シンポジウム 2009/8/1
  • 浜田省吾「ナノシステムのための新規核酸モチーフ」ナノデバイス研究会2009/3/9
  • 浜田省吾「新規DNAナノ構造体の設計及び作製」MesoMolSys研究会夏季セミナー 2008/09/05
  • 浜田省吾, 村田 智 「核酸を用いた新規構造体モチーフの設計」 計測自動制御学会 第20回自律分散システム・シンポジウム 2008/01/25

Research Group/Special Seminar

  • オーストラリア ロイヤルメルボルン大学セミナー RMIT University Seminar 2013/02/22
  • オーストラリア CSIROセンター Seminars at CSIRO Sites (Brisbane/Melbourne) 2013/02/18, 21
  • デンマーク オーフス大学 Specialized iNANO Lecture 2011/09/16
  • 韓国 成均館大学 S.H.Parkグループ セミナー 2010/09/02
  • 米国 アリゾナ州立大学 H. Yanグループ セミナー 2010/04/23
  • 米国 コロンビア大学 M. Stojanovicグループ セミナー 2009/12/11
  • 米国 パデュー大学 C.Maoグループ セミナー 2009/12/9
  • 韓国 成均館大学 S.H.Parkグループ セミナー 2009/09/11

Patents

  • SYSTEM AND METHODS FOR GENERATING DYNAMIC MATERIALS HAVING ARTIFICIAL METABOLISM (PCT/US2020/026680)
  • 核酸構造体及びその核酸構造体を用いた核酸構造物 (特願2008-012050)