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RIKEN Information R&D and Strategy Headquarters Medical Data Deep Learning Team

Team Leader: Jun Seita (M.D., Ph.D.)

Research Summary

Jun  Seita(M.D., Ph.D.)

We study deep learning on health and medical data. Each variable in health and medical data has different characteristic, thus data standardization plays critical role for accuracy and efficiency of deep learning. We investigate data generation, data privacy protection, data standardization, deep learning, and data visualization, to achieve personalized preventive medicine based on precise predictions.

Main Research Fields

  • Complex Systems

Related Research Fields

  • Informatics
  • Biological Sciences
  • Biology
  • Medicine, Dentistry & Pharmacy


  • Deep learning
  • Systems biology
  • Systems medicine

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

  • 1. Koga T, Ema R, Hirose K, Seita J.:
    "Human and GAN collaboration to create haute couture dress."
    Machine Learning for Creativity and Design Workshop at NeurIPS 2019.
  • 2. Nonaka H, Seita J.:
    "Demographic Information Initialized Stacked Gated Recurrent Unit for an Early Prediction of Sepsis."
    PhysioNet Computing in Cardiology Challenge 2019
  • 3. Koga T, Nonaka N, Sakuma J, Seita J.:
    "General-to-Detailed GAN for Infrequent Class Medical Images."
    Machine Learning for Health (ML4H) Workshop at NeurIPS 2018.
  • 4. Rosental B, Kowarsky M, Seita J, Corey DM, Ishizuka KJ, Palmeri KJ, Chen SY, Sinha R, Okamoto J, Mantalas G, Manni L, Raveh T, Clarke DN, Tsai JM, Newman AM, Neff NF, Nolan GP, Quake SR, Weissman IL, Voskoboynik A.:
    "Complex mammalian-like haematopoietic system found in a colonial chordate."
    Nature. 2018 Dec 5.
  • 5. Tsai JM, Sinha R, Seita J, Fernhoff N, Christ S, Koopmans T, Krampitz GW, McKenna KM, Xing L, Sandholzer M, Sales JH, Shoham M, McCracken M, Joubert LM, Gordon SR, Poux N, Wernig G, Norton JA, Weissman IL, Rinkevich Y.:
    "Surgical adhesions in mice are derived from mesothelial cells and can be targeted by antibodies against mesothelial markers."
    Sci Transl Med. 2018 Nov 28;10(469)
  • 6. Chan C, Gulati G, Sinha R, Tompkins J, Lopez M, Carter A, Ransom R, Reinisch A, Wearda T, Murphy M, Brewer R, Koepke L, Marecic O, Manjunath A, Seo EY, Leavitt T, Lu WJ, Nguyen A, Conley S, Salhotra A, Ambrosi T, Borrelli M, Siebel T, Chan K, Schallmoser K, Seita J, Sahoo D, Goodnough H, Bishop J, Gardner M, Majeti R, Wan D, Goodman S, Weissman IL, Chang H, Longaker M.:
    "Identification of the Human Skeletal Stem Cell."
    Cell 2018 Sep 20; 175(1): 43-56.
  • 7. *Seita J*, Beerman I*, Inlay M, Weissman IL, Rossi DJ.:
    "Quiescent hematopoietic stem cells accumulate DNA damage during aging that is repaired upon entry into cell cycle."
    Cell Stem Cell 2014 Jul 3;15(1)
  • 8. *Seita J, Sahoo D, Rossi DJ, Battacharya D, Serwold T, Inlay MA, Ehrlich LIR, Fathman JW, Dill DL, Weissman IL.:
    "Gene Expression Commons: an open platform for absolute gene expression profiling."
    PLoS ONE 2012;7(7)
  • 9. *Seita J* , Ji H*, Ehrlich LI* (equal contribution), Murakami P, Doi A, Lindau P, Lee H, Aryee MJ, Irizarry RA, Kim K, Rossi DJ, Inlay MA, Serwold T, Karsunky H, Ho L, Daley GQ, Weissman IL, Feinberg AP.:
    "Comprehensive methylome map of lineage commitment from haematopoietic progenitors."
    Nature. 2010 Sep 16;467(7313)
  • 10. *Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, Naveiras O, Yoon TJ, Irizarry RA, Jung N, Seita J, Hanna J, Murakami P, Jaenisch R, Weissleder R, Orkin SH, Weissman IL, Feinberg AP, Daley GQ.:
    "Epigenetic memory in induced pluripotent stem cells."
    Nature. 2010 Sep 16:467 (7313)

Related Links

Lab Members

Principal investigator

Jun Seita
Team Leader

Core members

Naoki Nonaka
Research Scientist
Atsushi Senda
Visiting Scientist
Mariko Shimokawa
Visiting Scientist
Kosuke Kato
Junior Research Associate
Ai Miyasaka
Student Trainee
Shunpei Takinami
Student Trainee
Arisa Kono
Research Part-time Worker II
Takashi Yamanashi
Research Part-time Worker II
Kiyoyasu Fukuchi
Research Part-time Worker II
Kanta Suga
Research Part-time Worker II
Monami Nishio
Research Part-time Worker II

Contact Information

Nihonbashi 1-chome Mitsui Building, 15th floor
1-4-1 Nihonbashi Chuo-ku, Tokyo 103-0027, Japan
Email: jun.seita [at] riken.jp