Computational Systems Biology Research Group
Research Areas
Understanding and a control of systems of lifeThe systems of life consist of the multiple layers with various scales including atom, molecule, cell, organ, body and ecosystem, and these layers are closely related to each other. The goal of our research is to clarify the mechanism to control the entire systems of life through computational modeling based on the quantitative measurements and computational analysis. In addition, for the application to the medicine and the industries, we try to modify systems to create a new system based on the computational model. 2. Development of the basic technology of the next-generation computational biology We are developing the basic technology for large-scale analysis using the next-generation supercomputer. For instance, we develop the molecular design technology for measuring or controlling the life system by the high-performance molecular simulation. |
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Research Subject
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List of Selected Publications
| (1) | Nagashima, T., Suzuki, T., Kondo, S., Kuroki, Y., Takahashi, K., Ide, K., Yumoto, N., Hasegawa, A., Toyoda, T., Kojima, T., Konagaya, A., Suzuki, H., Hayashizaki, Y., Sakaki, Y. , and Hatakeyama, M.: "Integrative genome-wide expression analysis bears evidence of estrogen receptor-independent transcription in heregulin-stimulated MCF-7 cells." PLoS One, 3, e1803-1 ~ e1803-12, (2008). |
| (2) | Kimura, A., and Onami, S.: "Local cortical pulling force repression switches centrosomal centration and posterior displacement in C. elegans." J. Cell Biol., 179, No.7, 1347-1354, (2007) . |
| (3) | Narumi, T., Ohno, Y., Okimoto, N., Koishi, T., Suenaga, A., Futatsugi, N., Yanai, R., Himeno, R., Fujikawa, S., Ikei, M., and Taiji, M.: "A 55 TFLOPS Simulation of Amyloid-forming Peptides from Yeast Prion Sup35 with the Special-purpose Computer System MDGRAPE-3." Proc. Supercomputing 2006, in CD-ROM, (2006). |
| (4) | Kuroki, Y., Toyoda, A., Noguchi, H., Todd, D.T., Itoh, T., Dae-Soo, K., Kim, D.W., Choi, S.H., Kim, I.C., Choi, H.H., Kim,Y.S., Satta Y., Saitou N., Yamada T., Morishita S., Hattori M., Sakaki Y., Hong-Seog, Park and Fujiyama A.: "Comparative analysis of chimpanzee and human Y chromosomes unveils complex evolutionary pathway." Nature Genetics, 38, 158-167, (2006). |
| (5) | Suenaga, A., Takada, N., Hatakeyama, M., Ichikawa, M., Yu, X., Tomii, K., Okimoto, N., Futatsugi, N., Narumi, T., Shirouzu, M., Yokoyama, S., Konagaya, A., and Taiji, M.: "Novel mechanism of interaction of p85 subunit of phosphatidylinositol 3-kinase and ErbB3 receptor-derived phosphotyrosyl peptides." J. Biol. Chem. 280, 1321-1326, (2005). |
| High-Performance Molecular Simulation Team |
| MetaSystems Research Team |
| Developmental Systems Modeling Team |
| Biomechanical Simulation Research Team |
| Biochemical Simulation Research Team |