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RIKEN Center for Advanced Intelligence Project Statistical Genetics Team

Team Leader: Gen Tamiya (Ph.D.)

Research Summary

Gen  Tamiya(Ph.D.)

Using AI-based methods in statistical genetics, we analyze Big Data consisting of a wide variety of information such as genomic variations, lifestyle and health status, co-existing microorganisms including pathogens together with an enormous medical literature in order to identify causal factors for complex common diseases. We aim to enable genomic risk prediction for complex common diseases and then to realize personalized and preventive medicine. Chiefly we investigate Big Data from large-scale prospective genomic cohorts such as the Tohoku Medical Megabank organization. We apply the similar approach to agriculture and other life science data.

Research Subjects

  • Statistical genetics of prospective genomic cohort and other life science data

Main Research Fields

  • Biological Sciences

Related Research Fields

  • Agricultural Sciences
  • Informatics
  • Mathematical & Physical Sciences
  • Medicine, Dentistry & Pharmacy
  • Human Genetics
  • Epidemiology and preventive medicine
  • Science in genetics and breeding

Keywords

  • Genome Cohort
  • Statistical Genetics
  • Gene-Environment Interaction
  • Machine Learning

Selected Publications

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

  • 1. Takahashi, Y., Ueki, M., Yamada, M., Tamiya, G., Motoike, I.N., Saigusa, D., Sakurai, M., Nagami, F., Ogishima, S., Koshiba, S., Kinoshita, K., Yamamoto, M., and Tomita, H.:
    "Improved metabolomic data-based prediction of depressive symptoms using nonlinear machine learning with feature selection"
    Translational Psychiatry 10(1): 157 (2020)
  • 2. Yamamoto, Y., Tsuzuki, T., Akatsuka, J., Ueki, M., Morikawa, H., Numata, Y., Takahara, T., Tsuyuki, T., Tsutsumi, K., Nakazawa, R., Shimizu, A., Maeda, I., Tsuchiya, S., Kanno, H., Kondo, Y., Fukumoto, M., Tamiya, G., Ueda, N., and Kimura, G.:
    "Automated acquisition of explainable knowledge from unannotated histopathology images"
    Nature Communications 10: 5642 (2019)
  • 3. Yano, K., Morinaka, Y., Wang, F., Huang, P., Takehara, S., Hirai, T., Ito, A., Koketsu, E., Kawamura, M., Kotake, K., Yoshida, S., Endo, M., Tamiya, G., Kitano, H., Ueguchi-Tanaka, M., Hirano, K., and Matsuoka, M.:
    "GWAS with principal component analysis identifies a gene comprehensively controlling rice architecture"
    Proceedings of the National Academy of Sciences of the United States of America 116(42): 21262-21267 (2019)
  • 4. Sakurai, R., Ueki, M., Makino, S., Hozawa, A., Kuriyama, S., Takai-Igarashi, T., Kinoshita, K., Yamamoto, M., and Tamiya, G.:
    "Outlier detection for questionnaire data in biobanks"
    International Journal of Epidemiology 48(4): 1305-1315 (2019)
  • 5. *Araki ,Y., Awakawa, T., Matsuzaki, M., Cho, R., Matsuda, Y., Hoshino, S., Shinohara, Y., Yamamoto, M., Kido, Y., Inaoka, D.K., Nagamune, K., Ito, K., Abe, I., and Kita, K.:
    "Complete biosynthetic pathways of ascofuranone and ascochlorin in Acremonium egyptiacum"
    Proceedings of the National Academy of Sciences of the United States of America 116(17): 8269-8274 (2019)
  • 6. Kuroha, T., Nagai, K., Gamuyao, R., Wang, D.R., Furuta, T., Nakamori, M., Kitaoka, T., Adachi, K., Minami, A., Mori, Y., Mashiguchi, K., Seto, Y., Yamaguchi, S., Kojima, M., Sakakibara, H., Wu, J., Ebana, K., Nobutaka, M., Ohme-Takagi, M., Yanagisawa, S., Yamasaki, M., Yokoyama, R., Nishitani, K., Mochizuki, T., Tamiya, G., McCouch, S.R., and Ashikari, M.:
    "Ethylene-gibberellin signaling underlies adaptation of rice to periodic flooding"
    Science 361(6398): 181-186 (2018)
  • 7. *Ueki, M., and Tamiya, G.:
    "Smooth-threshold multivariate genetic prediction with unbiased model selection"
    Genetic Epidemiology 40(3): 233-243 (2016)
  • 8. *Kuriyama, S., Yaegashi, N., et al. (Tamiya, G.; 11th in 58 authors):
    "The Tohoku Medical Megabank Project: Design and Mission"
    Journal of Epidemiology 26(9): 493–511 (2016)
  • 9. *Tamiya, G., Makino, S., Hayashi, M., Abe, A., Numakura, C., Ueki, M., Tanaka, A., Ito, C., Toshimori, K., Ogawa, N., Terashima, T., Maegawa, H., Yanagisawa, D., Tooyama, I., Tada, M., Onodera, O., and Hayasaka, K.:
    "A mutation of COX6A1 causes a recessive axonal or mixed form of Charcot-Marie-Tooth disease"
    American Journal of Human Genetics 95(3): 294-300 (2014)
  • 10. *Ueki, M., and Tamiya, G.:
    "Ultrahigh-dimensional variable selection method for whole-genome gene-gene interaction analysis"
    BMC Bioinformatics 13(1): 72 (2012)

Related Links

Lab Members

Principal investigator

Gen Tamiya
Team Leader

Core members

Motomichi Matsuzaki
Research Scientist
Hikaru Matsuoka
Research Scientist
Rieko Sakurai
Postdoctoral Researcher

Contact Information

Email: gen.tamiya [at] riken.jp

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