Theoretical Biology Laboratory

The progress of modern biology causes rapid increase in the information of molecular level. We now understand that the biological phenomena are governed by complex interactions between molecules, cells or organs and that the biological functions are emerged from the whole of the systems. We adopt mathematical or theoretical methods to decipher huge amounts of molecular information, and to give integrative understanding for the complex biological systems. We have multiple projects of collaboration works with experimental biologists. In these projects we try to derive testable prediction as far as possible. At the same time, we try to develop general theories originated from the context of modern biology.

Research Subjects

• Solving biological problems by mathematical or theoretical methods
• Develop general theories originated from the context of modern biology

Publications

1. Kubota,Y., Karube, F., Nomura, M., Gulledge, A. T., Mochizuki, A., Schertel, A. and Kawaguchi Y.:
   "Conserved properties of dendritic trees in four cortical interneuron subtypes"
   Sci. Rep. 1, 89. (2011)
2. Mochizuki A. and Saito D.:
   "Analyzing steady states of dynamics of bio-molecules from the structure of regulatory networks"
   J. Theor. Biol. 266, 323-335. (2010)
3. Takahashi, J., Ohbayashi, A., Oginuma, M., Saito, D., Mochizuki, A., Saga, Y. and Takada, S.:
   "Analysis of Ripply1/2-deficient mouse embryos reveals a mechanism underlying the rostrocaudal patterning within a somite."
   Dev. Biol. 342, 134-145. (2010)
   
4. Nakazato, K. and Mochizuki A.:
   "Steepness of thermal gradient is essential to obtain a unified view of thermotaxis in C. elegans."
   J. Theor. Biol. 260, 56-65. (2009)
5. Mochizuki A.:
   "Structure of regulatory networks and diversity of gene expression patterns."
   J. theor. Biol. 250, 307-321 (2008)
6. Sugimura K., Shimono K., Uemura T. and Mochizuki A.:
   "Self-organizing mechanism for development of space-filling neuronal dendrites."
   PLoS Comput Biol. 3(11), 2143-2154 (2007)
7. Ishihara, S., Otsuji, M. and Mochizuki, A.:
   "Transient and steady state of mass-conserved reaction-diffusion systems."
   Phys. Rev. E 75 (1), 015203-1 - 015203-4 (2007)
8. Nakamura, T., Mine, N., Nakaguchi, E., Mochizuki, A., Yamamoto, M., Yashiro, K., Meno, C., & Hamada, H.:
   "Generation of robust left-right asymmetry in the mouse embryo requires a self-enhancement and lateral-inhibition system."
   Dev. Cell 11, 495-504 (2006)
   
9. Fujita, H. & Mochizuki, A.:
   "Fujita, H. & Mochizuki, A. (2006) The Origin of the Diversity of Leaf Venation Pattern."
   Dev. Dyn. 235, 2710-2721 (2006)
   
10. Takigawa-Imamura, H., Mochizuki, A.:
    "Predicting regulation of the phosphorylation cycle of KaiC clock protein using mathematical analysis."
    J Biol. Rhythms 21, 405-416 (2006)