Centers & Labs

Chief Scientist Laboratories

Microfluidics RIKEN Hakubi Research Team

Riken Hakubi team leader: Hirofumi Shintaku (D.Eng.)
Hirofumi  Shintaku(D.Eng.)

We actively study problems involving fluid dynamics and transport phenomena in micro/nano confined spaces. The problems are inspired by microfluidic systems for biochemical analysis and cellular engineering. Especially, we are interested in electrokinetic phenomena, e.g., electrophoresis, electroosmotic flow, and electrowetting, of complex fluids including cells and biomacromolecules. We recently developed a microfluidic system that enables the high-throughput sequencing of cytoplasmic and nuclear RNA with the physical fractionation of the RNA species via electrical lysis and isotachophoresis. We leverage our method to uncover the regulation of gene expression involving RNA localization and transport in single cells.

Main Research Field


Related Research Fields

Interdisciplinary science and engineering


  • Microfluidics
  • Single cell analyses
  • Electrokinetics
  • Nucleic acids
  • Next generation sequencing

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.
  1. Abdelmoez, M.N.*, Iida, K.*, Oguchi, Y.*, Nishikii, H., Yokokawa, R., Kotera, H., Uemura, S., Santiago, J.G. and Shintaku, H.:
    “SINC-seq: correlation of transient gene expressions between nucleus and cytoplasm reflects single-cell physiology”
    Genome Biology, (2018) DOI:. 10.1186/s13059-018-1446-9.
  2. *Kuriyama, K.*, Shintaku, H.*, and Santiago, J.G.:
    “Protocol for microfluidic system to automate the preparation and fractionation of the nucleic acids in the cytoplasm versus nuclei of single cells”
    Bio-protocol, Vol. 6, Issue 12, (2016), e1844.
  3. *Kuriyama, K.*, Shintaku, H.*, and Santiago, J.G.:
    “Isotachophoresis for Fractionation and Recovery of Cytoplasmic RNA and Nucleus from Single Cells”
    Electrophoresis, Vol. 36, Issue 14(2015) pp. 1658-1662.
  4. *Shintaku, H., Palko, J.W., Sanders, G.M., and Santiago, J.G.:
    “Increasing Hybridization Rate and Sensitivity of Bead Based Assays Using Isotachophoresis”
    Angewandte Chemie International Edition,Vol. 53 (2014), pp. 13813-13816.
  5. *Shintaku, H., Nishikii, H., Marshall, L.A., Kotera, H., and Santiago, J.G.:
    “On-Chip Separation and Analysis of RNA and DNA from Single Cells”
    Analytical Chemistry, Vol. 86, No. 4 (2014), pp 1953–1957.
  6. *Shintaku, H., Hakamada, K., Fujimoto, H., Nagata, T., Miyake, J., and Kawano, S.:
    “Measurement of Local Electric Field in Microdevices for Low-Voltage Electroporation of Adherent Cells”
    Microsystem Technologies, Vol. 20, Issue 2 (2014), pp. 303-313.
  7. *Shintaku, H., Kobayashi, T., Zusho, K., Kotera, H., and Kawano, S.:
    “Wide-Range Frequency Selectivity in Acoustic Sensor Fabricated Using Microbeam Array with Non-uniform Thickness”
    Journal of Micromechanics and Microengineering, Vol. 23, No.11 (2013), 115014 (7 pages)
  8. *Inaoka*, T., Shintaku*, H., Nakagawa, T., Kawano, S., Ogita, H., Sakamoto, T., Hamanishi, S., Wada, H., and Ito, J.:
    “Piezoelectric Materials Mimic the Function of the Cochlear Sensory Epithelium”
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 108, No. 45 (2011), pp. 18390-18395.
  9. *Shintaku, H., Nakagawa, T., Kitagawa, D., Tanujaya, H., Kawano,S., and Ito, J.:
    “Development of Piezoelectric Acoustic Sensor with Frequency Selectivity for Artificial Cochlea”
    Sensors and Actuators A: Physical, Vol. 158, Issue 2 (2010), pp. 183-192.
  10. *Shintaku, H., Kuwabara, T., Kawano, S., Suzuki, T., Kanno, I., and Kotera, H.:
    “Micro Cell Encapsulation and Its Hydrogel-beads Production Using Microfluidic Device”
    Microsystem Technologies, Vol. 13, No. 8-10 (2007), pp. 951-958.

Contact information

Main Research Building 6F
2-1 Hirosawa, Wako, Saitama 351-0198, Japan

Email: hirofumi.shintaku [at]

Related links