Publications
127 results found
Kimura H, Shimoda S, Tanaka RJ, 2010, Compound control: Capturing multivariable nature of biological control, Lecture Notes in Control and Information Sciences, Vol: 398, Pages: 273-283, ISSN: 0170-8643
Multivariable extension of design theory was a historic milestone that innovated the basic framework of control theory fundamentally. Analogous situation is now coming into the stage of biological control research. This paper addresses the present state-of-arts of this issue, introducing the multivariable nature of biological control, the formulation of the problem under specific assumptions and preliminary results obtained. The paper suggests the possible paradigm change in future biological control research. © 2010 Springer-Verlag Berlin Heidelberg.
Kimura H, Shimoda S, Tanaka RJ, 2010, Compound Control: Capturing Multivariable Nature of Biological Control, Perspectives in Mathematical System Theory, Control, and Signal Processing, Pages: 273-283, ISSN: 0170-8643
Kimura H, Shimoda S, Gaohua L, et al., 2009, Towards a common principle of biological control - How control weaves the string of life, Pages: 5111-5116
This paper reviews the interplay between biology and control theory as a typical example of transdisciplinary knowledge integration. Control is a fundamental function of the living organism that works in all aspects of the life. Various control mechanisms are ubiquitously built-in at all levels of body structures of living organisms and work all the time to support the life. They are diversely different from one to another with different material bases and structures, but there are many reasons to think that have some common ground and design principles. It is argued that a unified approach is exploited by focusing on a biological way of dealing with environmental changes to investigate various control mechanisms of living organisms.The notion of compound control is proposed as a common principle of biological control based on the transdisciplinary nature of control theory. © 2009 SICE.
Tanaka RJ, Gaohua L, Shimoda S, et al., 2009, Compound control — adaptation to multiple environmental changes, 48th IEEE Conference on Decision and Control, Pages: 6183-6188
Tanaka RJ, Kimura H, 2008, Mathematical classification of regulatory logics for compound environmental changes, JOURNAL OF THEORETICAL BIOLOGY, Vol: 251, Pages: 363-379, ISSN: 0022-5193
- Author Web Link
- Cite
- Citations: 14
Tanaka RJ, 2008, Towards a biological control theory at cellular level, International Workshop on Future Challenges for Systems Biology
Tanaka RJ, Kimura H, 2007, Three elementary logics for compound control, Pages: 2730-2734
This paper is concerned with the regulatory mechanisms used for compound control, the characteristic mode of control in biological systems, to administer appropriate regulations in response to the simultaneous occurrence of a huge number of environmental changes. The restricted resources of cells strictly limit the number of their regulatory methods, so cells must adopt, as compensation, special mechanisms to deal with the simultaneous occurrence of environmental changes. We hypothesize that cells use various control logics to integrate information about independent but functionally related environmental changes. Using the notion of equivalent classes in set theory, we demonstrate that the regulatory mechanisms used for compound control, represented by logical functions, can be mathematically classified into three functionally different elementary control logics. © 2007 SICE.
Kimura H, Okano H, Tanaka RJ, 2007, Stochastic approach to molecular interactions and computational theory of metabolic and genetic regulations, JOURNAL OF THEORETICAL BIOLOGY, Vol: 248, Pages: 590-607, ISSN: 0022-5193
- Author Web Link
- Cite
- Citations: 11
Tanaka RJ, Kimura H, 2007, Three elementary logics for compound control, Annual Conference on the Society-of-Instrument-and-Control-Engineers, Publisher: IEEE, Pages: 2721-2725
Tanaka RJ, Okano H, Kimura H, 2006, Mathematical description of gene regulatory units, BIOPHYSICAL JOURNAL, Vol: 91, Pages: 1235-1247, ISSN: 0006-3495
- Author Web Link
- Cite
- Citations: 22
Tanaka RJ, Kimura H, 2006, Mathematical description of gene regulatory units from compound control viewpoint, 17th International Symposium on Mathematical Theory of Networks and Systems
Tanaka R, Csete M, Doyle J, 2005, Highly optimised global organisation of metabolic networks., Syst Biol (Stevenage), Vol: 152, Pages: 179-184, ISSN: 1741-2471
High-level, mathematically precise descriptions of the global organisation of complex metabolic networks are necessary for understanding the global structure of metabolic networks, the interpretation and integration of large amounts of biologic data (sequences, various -omics) and ultimately for rational design of therapies for disease processes. Metabolic networks are highly organised to execute their function efficiently while tolerating wide variation in their environment. These networks are constrained by physical requirements (e.g. conservation of energy, redox and small moieties) but are also remarkably robust and evolvable. The authors use well-known features of the stoichiometry of bacterial metabolic networks to demonstrate how network architecture facilitates such capabilities, and to develop a minimal abstract metabolism which incorporates the known features of the stoichiometry and respects the constraints on enzymes and reactions. This model shows that the essential functionality and constraints drive the tradeoffs between robustness and fragility, as well as the large-scale structure and organisation of the whole network, particularly high variability. The authors emphasise how domain-specific constraints and tradeoffs imposed by the environment are important factors in shaping stoichiometry. Importantly, the consequence of these highly organised tradeoffs and tolerances is an architecture that has a highly structured modularity that is self-dissimilar and scale-rich.
Tanaka R, Csete M, Doyle J, 2005, Highly optimised global organisation of metabolic networks, 1st International Conference on Foundations of Systems Biology in Engineering (FOSBE 2005), Publisher: INST ENGINEERING TECHNOLOGY-IET, Pages: 179-184, ISSN: 1741-2471
- Author Web Link
- Cite
- Citations: 32
Doyle JC, Alderson DL, Li L, et al., 2005, The "robust yet fragile" nature of the Internet, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 102, Pages: 14497-14502, ISSN: 0027-8424
- Author Web Link
- Cite
- Citations: 271
Tanaka R, Yi TM, Doyle J, 2005, Some protein interaction data do not exhibit power law statistics, FEBS LETTERS, Vol: 579, Pages: 5140-5144, ISSN: 0014-5793
- Author Web Link
- Cite
- Citations: 79
Tanaka R, 2005, Scale-rich metabolic networks, PHYSICAL REVIEW LETTERS, Vol: 94, ISSN: 0031-9007
- Author Web Link
- Cite
- Citations: 101
Li L, Alderson DL, Tanaka R, et al., 2005, Towards a Theory of Scale-Free Graphs: Definition, Properties, and Implications (Extended Version), CoRR, Vol: abs/cond-mat/0501169
Yamada H, Tanaka R, Nakagaki T, 2004, Sequences of symmetry-breaking in phyllotactic transitions, BULLETIN OF MATHEMATICAL BIOLOGY, Vol: 66, Pages: 779-789, ISSN: 0092-8240
- Author Web Link
- Cite
- Citations: 6
Endo T, Tanaka R, Aiyoshi E, 2004, Analysis in Pulse-Coupled Oscillators with Symmetry, IEEJ Transactions on Electronics, Information and Systems, Vol: 124, Pages: 533-541, ISSN: 0385-4221
Synchronization in biological systems, such as synchronized luminosity of fireflies and synchronization of cardiac cells, is realized by interactions among oscillators with pulse signals. These systems with pulse signal couplings are called pulse-coupled oscillators. This paper analyses the synchronization of bidirectional pulse-coupled oscillators. Extending an analysis method of ring arrayed uni-directional pulse-coupled oscillators with the integrate-and-fire model, we show various synchronization patterns in bidirectional coupling oscillators, and analyze their stabilities. Moreover, numerical simulation shows the relationships between the spacial symmetry of the system and synchronization patterns. © 2004, The Institute of Electrical Engineers of Japan. All rights reserved.
Takamatsu A, Tanaka R, Fujii T, 2004, Hidden symmetry in chains of biological coupled oscillators, PHYS REV LETT, Vol: 92
Takamatsu A, Tanaka R, Yamamoto T, et al., 2003, Control of oscillation patterns in a symmetric coupled biological oscillator system, Pages: 230-235, ISSN: 0094-243X
A chain of three-oscillator system was constructed with living biological oscillators of phasmodial slime mold, Physarum polycehalum and the oscillation patterns were analyzed by the symmetric Hopf bifurcation theory using group theory. Multi-stability of oscillation patterns was observed, even when the coupling strength was fixed. This suggests that the coupling strength is not an effective parameter to obtain a desired oscillation pattern among the multiple patterns. Here we propose a method to control oscillation patterns using resonance to external stimulus and demonstrate pattern switching induced by frequency resonance given to only one of oscillators in the system.
Takamatsu A, Tanaka R, Fujii T, 2003, Experimental evidence of hidden symmetry in a chain of coupled biological oscillators with plasmodial slime mold, Dynamics Days Arizona 22nd Annual International Conference
Tanaka R, Saiki I, Ikeda K, 2002, Group-theoretic bifurcation mechanism of pattern formation in three-dimensional uniform materials, INT J BIFURCATION and CHAOS, Vol: 12, Pages: 2767-2798
Takamatsu A, Tanaka R, Yamada H, et al., 2001, Spatiotemporal symmetry in rings of coupled biological oscillators of <i>Physarum</i> plasmodial slime mold -: art. no. 078102, PHYSICAL REVIEW LETTERS, Vol: 87, ISSN: 0031-9007
- Author Web Link
- Cite
- Citations: 123
Takamatsu A, Tanaka R, Yamada H, et al., 2001, Spatiotemporal symmetry in rings of coupled biological oscillators of physarum plasmodial slime mold, Physical Review Letters, Vol: 87, ISSN: 0031-9007
A biological coupled oscillator system of a plasmodial slime mold, Physarum polycephalum, was studied. The existence of some of the oscillation patterns predicted by this theory was shown. Furthermore, the effectiveness of the symmetric Hopf bifurcation theory for practical systems was emphasized.
Tanaka R, Murota K, 2001, A remark on symmetries in linear control systems, TRANS SOC INSTRUMENT and CONTROL ENGINEERS, Vol: 37, Pages: 584-586
Tanaka R, Murota K, 2000, Symmetric failures in symmetric control systems, 11th International Symposium on Mathematical Theory of Networks and Systems
Takamatsu A, Fujii T, Tanaka R, et al., 2000, A multiple coupled oscillator system of the true slime mold, Gordon Research Conferences on Oscillations and Dynamic Instabilities in Chemical Systems
Tanaka R, Murota K, 2000, Quantitative analysis for controllability of symmetric control systems, INT J CONTROL, Vol: 73, Pages: 254-264
Tanaka R, 2000, Controllability of hierarchical systems with direct product symmetry, TRANS SOC INSTRUMENT and CONTROL ENGINEERS, Vol: 36, Pages: 1056-1058
This data is extracted from the Web of Science and reproduced under a licence from Thomson Reuters. You may not copy or re-distribute this data in whole or in part without the written consent of the Science business of Thomson Reuters.