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IMOTO, Yusuke

IMOTO, Yusuke

IMOTO, Yusuke

Affiliation:Institute for the Advanced Study of Human Biology (WPI-ASHBi),Kyoto University Institute for Advanced Study(KUIAS),Kyoto University, Japan

Position: Associate professor

Degree: Ph.D (mathematics)

Research keywords: Applied mathematics, Numerical analysis for partial differential equations, Computational fluid dynamics, Hyper dual numbers, Topological data analysis, Statistical causal discovery.

e-mail：imoto.yusuke.4e * kyoto-u.ac.jp (change * to ＠)

Curriculum Vitae  GitHub  X (Twitter)

JAPANESE

Research topics

  1. Numerical analysis of particle methods and application into engineering and disaster science
  2. Theory and application of hyper-dual numbers
  3. Mathematical theory and application for single-cell data science
Dam-break simulation by a particle method.
Dam-break simulation by a particle method.
Image of dual number.
Image of dual number.
Dam-break simulation by a particle method.
Single-cell data analysis by topological data analysis.

Publications

  1. V-Mapper: topological data analysis for high-dimensional data with velocity. [ journal ]
    Y Imoto*, Y Hiraoka. Nonlinear Theory and Its Applications (NOLTA), Vol.E14-N (2), pp. 92-105, April 1, 2023.
  2. Resolution of the curse of dimensionality in single-cell RNA sequencing data analysis.[ preprint / journal ]
    Y Imoto, T Nakamura, E G Escolar, M Yoshiwaki, Y Kojima, Y Yabuta, Y Katou, T Yamamoto, Y Hiraoka*, M Saitou*. Life Science Alliance, Vol. 5 (12), August 9, 2022.
  3. Nucleome programming for the foundation of totipotency in mammalian germline development.[ journal ]
    M Nagano, B Hu, S Yokobayashi, A Yamamura, F Umemura, M Coradin, H Ohta, Y Yabuta, Y Ishikura, I Okamoto, H Ikeda, N Kawahira, Y Nosaka, S Shimizu, Y Kojima, K Mizuta, T Kasahara, Y Imoto, K Meehan, R Stocsits, G Wutz, Y Hiraoka, Y Murakawa, T Yamamoto, K Tachibana, J-M Peters, L A Mirny, B A Garcia, J Majewski, M Saitou*. The EMBO Journal, e110600, 15 June 2022.
  4. Nucleome programming for the foundation of totipotency in mammalian germline development. [ journal ]
    M Nagano, B Hu, S Yokobayashi, A Yamamura, F Umemura, M Coradin, H Ohta, Y Yabuta, Y Ishikura, I Okamoto, H Ikeda, N Kawahira, Y Nosaka, S Shimizu, Y Kojima, K Mizuta, T Kasahara, Y Imoto, K Meehan, R Stocsits, G Wutz, Y Hiraoka, Y Murakawa, T Yamamoto, K Tachibana, J-M Peters, L A Mirny, B A Garcia, J Majewski, M Saitou*. The EMBO Journal, e110600, 15 June 2022.
  5. Difference between smoothed particle hydrodynamics and moving particle semi-implicit operators[ journal(open access) ]
    Y Imoto*.
    Computer Methods in Applied Mechanics and Engineering, Vol. 395, 115012, May 15, 2022.
  6. Hyper-dual number-based numerical differentiation of eigensystems. [ journal ]
    M Fujikawa*, M Tanaka, N Mitsume, Y Imoto*.
    Computer Methods in Applied Mechanics and Engineering, Vol. 390, 114452,February 15, 2022.
  7. Fundamental theorem of matrix representations of hyper-dual numbers for computing higher-order derivatives. [ journal ]
    Y Imoto*, N Yamanaka, T Uramoto, M Tanaka, M Fujikawa, N Mitsume.
    JSIAM Letters, Vol. 12, pp. 29–32, June 1, 2020.
  8. Truncation error estimates of approximate operators in a generalized particle method.[ journal / preprint ]
    Y Imoto*.
    Japan Journal of Industrial and Applied Mathematics, Vol. 37, pp. 565–598, February 3, 2020.
  9. Convergence study and optimal weight functions of an explicit particle method for the incompressible Navier–Stokes equations. [ journal / preprint ]
    Y Imoto, S Tsuzuki, D Nishiura.
    Computational Particle Mechanics, Vol. 6 (4), pp. 671–694, September 18, 2019.
  10. Improvements in highly viscous fluid simulation using a fully implicit SPH method.[ journal ]
    D Morikawa*, M Asai, N Idris, Y Imoto, M Isshiki.
    Computational Particle Mechanics, Vol. 6 (4), pp. 529–544, September 18, 2019.
  11. Unique solvability and stability analysis for incompressible smoothed particle hydrodynamics method.[ journal / preprint ]
    Y Imoto*.
    Computational Particle Mechanics, Vol. 6 (2), pp. 297–309, March 26, 2019.
  12. Unique solvability and stability of a generalized particle method for a Poisson equation in discrete Sobolev norms.[ journal / preprint ]
    Y Imoto*.
    Applications of Mathematics, Vol. 64 (1), pp. 33–43, February 14, 2019.
  13. Truncation error estimates of approximate differential operators of a particle method based on the Voronoi decomposition.[ journal ]
    Y Imoto*, D Tagami.
    JSIAM Letters, Vol. 9, pp. 69–72, October 19, 2017.
  14. A truncation error estimate of the interpolant of a particle method based on the Voronoi decomposition.[ journal ]
    Y Imoto*, D Tagami. JSIAM Letters, Vol. 8, pp. 29–32, May 21, 2016.

*corresponding author(s)

Preprints

  1. Topological Node2vec: Enhanced Graph Embedding via Persistent Homology. [link]
    Yasuaki Hiraoka, Yusuke Imoto, Killian Meehan*, Théo Lacombe, Toshiaki Yachimura. arXiv:2309.08241
  2. scEGOT: Single-cell trajectory inference framework based on entropic Gaussian mixture optimal transport. [link]
    Toshiaki Yachimura, Hanbo Wang, Yusuke Imoto, Momoko Yoshida, Sohei Tasaki, Yoji Kojima, Yukihiro Yabuta, Mitinori Saitou, Yasuaki Hiraoka. bioRxiv:2023.09.11.557102

*corresponding author(s)

Research Grants & Projects

Principal Investigator

  1. FOREST（創発） in Japan science and technology agency (JST), 4/2024–3/2032, total amount: 50,000K JPY.
  2. PRESTO（さきがけ） in Japan science and technology agency (JST), Multi-resolution structural analysis system for cell differentiation, JPMJPR2021, 11/2020–3/2024, total amount: 40,000K JPY. [ link ]
  3. Grant-in-Aid for Young Scientists (B) in Japan Society for the Promotion of Science (JSPS)
    , A development of a particle method with high accuracy for flow problems and its mathematical justification (No. 17K17585), 4/2017–3/2021, total amount: 4,420K JPY. [ link ]
  4. General Joint Research Projects in Joint Usage/Research Center for Interdisciplinary Large-scale Information Infrastructures (JHPCN), Constructions of fundamental theory in particle methods and their expansion to a large-scale simulator, 4/2018–3/2019. [ link ]
  5. General Joint Research Projects in Joint Usage/Research Center for Interdisciplinary Large-scale Information Infrastructures (JHPCN), Developments of particle methods with high accuracy and their applications to large-scale computational fluid dynamics, 4/2017–3/2018. [ link ]

Co-Investigator / collaborator

  1. Moonshot Goal8 Feasibility Study in Japan science and technology agency(JST), Quantifying Weather Controllability and Mitigatable Flood Damage Based on Ensemble Weather Forecast, PI: Shunji Kotsuki, 06/2022–03/2025, total amount: 2,250K JPY.
  2. General Joint Research Projects in Joint Usage/Research Center for Interdisciplinary Large-scale Information Infrastructures (JHPCN), Development of a Powerful Tool for the Effective Particle Simulations of Debris Flows Using Dynamic Load Balance on a GPU Supercomputer., PI: Dr. Satori Tsuzuki, 4/2016–3/2017. [ link ]
  3. General Joint Research Projects in Joint Usage/Research Center for Interdisciplinary Large-scale Information Infrastructures (JHPCN), Large-scale Particle Simulations using Dynamic Load Balance on a GPU Supercomputer II — Application to Fluid-Structure Interaction, PI: Takayuki Aoki, 4/2015–3/2016. [ link ]
  4. JST CREST “Development of a Numerical Library based on Hierarchical Domain Decomposition for Post Petascale Simulation”, PI: Prof. Ryuji Shioya, 4/2012–3/2017. [ link ]

Awards

  1. JSIAM best paper award (JSIAM Letters).
    Y Imoto, D Tagami.
    The Japan society for industrial and applied mathematics (JSIAM), September 10, 2020.
  2. The 2018 MSJ Prize for Excellent Applied Mathematicians.</strong >
    Y Imoto.
    The Mathematical Society of Japan (MSJ), March 18, 2019. [ link ]
  3. Presentation award on JSIAM Spring meeting 2018.
    Y Imoto.
    The Japan society for industrial and applied mathematics (JSIAM), June 2018[ link ]
  4. Kyushu University student award (research).
    Y Imoto.
    Kyushu University, March 25, 2016.
  5. resentation award on applied mechanics symposium 2015.</strong >
    Y Imoto.
    Applied mechanics committee of Japan society of civil engineers (JSCE), December 1, 2015. [ link ]
  6. Best CFD graphics award.
    S Tsuzuki, T Aoki, Y Imoto, D Tagami.
    The Japan society of fluid mechanics, December 10, 2014.
  7. Best poster award at JSIAM annual meeting 2013,
    Y Imoto, D Tagami.
    The Japan society for industrial and applied mathematics (JSIAM), September 10, 2013.
  8. IMI director’s award.
    Y Imoto.
    Institute of Mathematics for Industry, Kyushu University, October 10, 2012.