Curriculum Vitae

Researchmap (English)

PDF (Updated 2021/02/25)

Professional Positions

2023/07-   Assistant Professor, Dept. of Computer Science, Tokyo Tech

2021/01-2023/06   Specially Appointed Lecturer, Dept. of Robotics, Tohoku University, Japan

2018/01-2020/12   Lecturer, Dept. of Biological and Environmental Engineering, Cornell University

2016/05-2020/12   Research Associate (Luo Lab), Dept. of Biological and Environmental Engineering, Cornell University

2013/04-2016/04    Kavli Postdoctoral Fellow, Kavli Institute at Cornell for Nanoscale Science, Cornell University

2011/04-2013/03    Assistant Professor (Molecular Robotics Lab), Dept. of Bioengineering and Robotics, Tohoku University

Education

2011 Doctor of Engineering, Interdisciplinary Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo, Japan

2009 Master of Engineering, Interdisciplinary Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo, Japan

2007 Bachelor of Engineering, School of Engineering, Tokyo Institute of Technology, Tokyo, Japan

• 2009.04-2011.03 Dept. of Computational Intelligence and Systems Science, Tokyo Institute of Technology (Dr. Eng., Early Graduation), Japan

• 2010.04-2011.03 Special Research Student, Dept. of Bioengineering and Robotics, Tohoku University, Japan

• 2009.04-2011.03 Research Fellow (DC1), JSPS.

• 2007.04-2009.03 Dept. of Computational Intelligence and Systems Science, Tokyo Institute of Technology (M. Eng.)

• 2003.04-2007.03 Dept. of Control and Systems Engineering, Tokyo Institute of Technology (B. Eng.)

Publications/Presentations

Journals and peer-reviewed books

• 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 (free access from this link until Jan. 11, 2022)

• 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).

Conference and Research Seminar (Oral Presentation)

• Hamada, S. Mesoscale DNA-based Machines Powered by Artificial Metabolism. The 59th Annual Meeting of the Biophysical Society of Japan. 2021/11/25 [Invited Speaker]

• Hamada, S. Towards "life-like" molecular robotics. ACSE Research Seminar, The University of Sheffield. 2021/11/17 [Invited Speaker]

• 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 [Invited Speaker]

• Hamada, S. Dawn of “life-like” molecular robotics. Springer Nature Applied Sciences Webinar. 2021/05/12 [Invited Speaker]

• 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 [Invited Speaker]

• Hamada, S. Creating a self-regeneratable material by DNA. 5th Nano Today Conference. (Waikoloa, HI) 2017/12/10

• 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 [Invited Speaker]

• Hamada, S. Macroscale DNA Structures toward Molecular Robotics. The 3rd Molecular Robotics Workshop. (Iwanuma, Japan) 2014/03/16 [Invited Speaker]

• Hamada, S. Substrate-Assisted Self-Assembly of DNA Nanostructures. 1st DNA Nanotechnology Forum. (Daejeon, Korea) 2012/12/17 [Invited Speaker]

• Hamada, S., Murata, S. A Preliminary Study on Colloidal Crystallization of DNA Motifs. 9th Annual Conference Foundations of Nanoscience (FNANO12). 2012/04/17 [Invited Speaker]

• 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

Poster Presentation

• Hamada, S., Murata, S. Theory of Substrate-Assisted Self-Assembly of DNA Nanostructures. Foundations of Nanoscience 2011  2011/4/12

• Hamada, S., Murata, S. Toward Self-Organization of DNA Nanorings Using Non-specific Interactions. Foundations of Nanoscience 2010  2010/4/28

• 上野雄也, 塚本勝男, 村田智, 浜田省吾「DNAタイル結晶の温度依存性」日本結晶成長学会 第39回結晶成長国内会議 2009/11/12-14

• Hamada, S., Murata, S. Designing Single-Duplex DNA Nanostructures by Abstraction. The first International Workshop on Bio-Design Automaton (IWBDA2009) 2009/07/27

• Nishimoto, S., Hamada, S., Hayashinaka, T., Murata, S. DNA motifs for Substrate-Assisted Self-Assembly. DNA15 2009/06/10

• Hamada, S., Murata, S. Design of Interconnected Single Duplex DNA Nanostructures. Foundations of Nanoscience 2009  2009/04/21

• 浜田省吾, 村田智 「新規DNA構造の設計および作製」 日本結晶成長学会 第33回結晶成長討論会 2008/09/11

• Hamada, S., Murata, S. A New Motif for DNA-based Nanostructures. Caltech Self-Replicating Chemical Systems Workshop 2008/08/27-28

• Hamada, S., Murata, S. T-Motif: A Novel Non-crossover Motif for DNA Nanostructures. Foundations of Nanoscience 2008  2008/04/22-25

• 浜田省吾, 村田智 「DNAナノ構造体のための新規モチーフ設計」 細胞を創る研究会 2007/11/26

• 浜田 省吾，鮎川 翔太郎，小林 晃大， 中島 悠策，高木 英昌，内山 正彦，柚木 克之，山村 雅幸，榊原 康文， 萩谷 昌己，木賀 大介，村田 智 「生物ロボコン「iGEM」の紹介」計測自動制御学会システム・情報部門 第12回創発システム・シンポジウム 2006/08/18-20

Textbook

• Molecular Robotics Research Group, Molecular design of DNA (English translation available: BIOMOD Handbook), CBI eBook Series (2017). ISBN: 978-4-9903708-9-3

• Tanaka, F., Komiya, K., Takinoue M., Hamada, S., Murata S. DNA Nanoengineering (Japanese), Kindai-kagaku sha (2011). ISBN-13: 978-4764904026

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

Teaching

Courses

• Biorobotics, Undergraduate Course (BEE 4940), Cornell University (Spring 2018-)

  • Introduction to bio-inspired and bio-enabled robotics across scales by an interdisciplinary approach, by gradually integrating knowledge in mechanical engineering and bioengineering.

• Experiments for Mechanics and Aerodynamics I (Biorobotics and systems course) [機械知能・航空実験 I], Undergraduate Course, Tohoku University (2012).

• Experiments for Mechanics and Aerodynamics II (Biorobotics and systems course) [機械知能・航空実験 II],, Undergraduate Course, Tohoku University (2011-2012).

• The Basics of Molecular Robotics [分子ロボティクス基礎] (5, 6 and 13). Graduate Student Course, Tohoku University (2011).

• An Introduction to Molecular Engineering [分子工作入門], Basic Seminar for Undergraduate Students, Tohoku University (2011-2012).

Special Lectures

• BEE/BME 7600 Cornell University (2014-)

Student Competition (Faculty Advisor)

• American Society of Agricultural and Biological Engineers (ASABE) Robotics Student Design Competition

  • Cornell University (2019)

• International Biomolecular Design Competition (BIOMOD)

  • Tohoku University (Team Sendai). (2012) [Grand Prize, Best Presentation, Best Video, Best Audience Choice Award, Gold Medal]

  • Tohoku University (Team Sendai). (2011) [Gold Medal]

Other Professional Activities and Services

• Section Editor (Molecular/Nano/Micro-Robotics), Encyclopedia of Robotics. Editors: Ang, M. H., Khatib, O., Siciliano, B. (Springer) 2019-current

• Judge, International Biomolecular Design Competition (BIOMOD) 2013-.

• Program Committee Member, The 20th International Conference on DNA Computing and Molecular Programming (DNA 20) (2014)

• Facilitator, Team Japan. International Biomolecular Design Competition (BIOMOD) 2011-2012.

• Session Organizer, SICE Symposium on Systems and Information (SSI) 2011

• Program Committee, ICMC 2011

• Session Chair, ICMC 2011

• Session Chair (Poster Blitz Session), FNANO 2011

• Secretary, Molecular Robotics Research Group, SICE (2010-)

• Peer Reviewer: Nature Communications, ACS Nano, Nanoscale, APL Bioengineering, DNA 20, Alife, ICMC, SSI, IFAC (International Federation of Automatic Control)

Patents

• 特願2008-012050「核酸構造体及びその核酸構造体を用いた核酸構造物」(WO/2009/093558)

Press

• 2019/04  Dynamic DNA material with emergent locomotion behavior powered by artificial metabolism

  • Cornell Chronicle, TechXplore, AzoMaterials, People's Daily, Xinhua, Nanowerk, Sign of the Times, Cosmos, Biospace, DailyMail, Newswise, China.org, EurekAlert, Futura-Sciences, ScienceDaily, SpaceDaily, Express.co.uk, SingularityHub, Futurism, Fast Company, MaterialsToday, etc.

• 2015/09 「自己複製するナノ材料」現代化学 (Chemistry Today) No. 534 東京化学同人 ("Self-replicating Nanomaterials", Japanese Journal)

• 2015/08/26 Scientists Design Self-Replicating DNA Nanostructures, The Science Times

• 2015/05/28 Self-replicating nanostructures made from DNA, Phys.org News

• 2015/05/20  한겨레Science On News (Korean)

• 2008/09/13「DNAでナノ構造物」日経産業新聞 (Japanese Newspaper)

Awards

• Best Cooperation and Collaboration (1st Place) & Best Part (3rd Place), iGEM 2006

Acknowledgments

Funding

• 2012.10- Member, JSPS Grant-in-Aid for Scientific Research on Innovative Areas (Molecular Robotics)

• 2011.10-2013.03 JSPS Grant-in-Aid for Research Activity Start-up

• 2009.04-2011.03 JSPS Grant-in-Aid for JSPS Fellows (DC1)

Fellowship

• 2009.04-2011.03 JSPS Research Fellowships for Young Scientists (DC1)