K. Kaneko's papers on Complex Systems Life Science (Theoretical Biophysics)

1.1 Cell differentiation and Development

C. Furusawa and K. Kaneko, ``Chaotic Expression Dynamics Implies Pluripotency: When Theory and Experimentation Meet", Biology Direct 4 (2009) 17; html ;

H. Yoshida and K. Kaneko, `` Emergence of intercalary and segmented regeneration in a cell differentiation model'' Developmental Dynamics, in press.

A. Nakajima and K. Kaneko " `` Regulative Differentiation as Bifurcation of Interacting Cell Population" J. Theor Biol. 253 (2008) 779-787 PDF

K. Kaneko, K. Sato, T. Michiue, K. Okabayashi, K. Ohnuma, H. Danno, and M. Asashima " `` Developmental Potential Describing Morphogenesis in vivo and in vitro" J Experimental Zoology B 310 (2008) 492-503 PDF

K. Fujimoto, S. Ishihara, and K. Kaneko " ``Network Evolution of Body Plans", PLoS ONE, 3 (2008) e2772 html PDF

H. Yoshida, C.Furusawa and K. Kaneko "Selection of initial condition for recursive production of multicellular organisms" J. theor. Biol.233, (2005) 501-514 PDF

C.Furusawa and K. Kaneko "Morphogenesis, Plasticity, and Irreversibility" International Journal Developmental Biology, 50 (2006) 223-232 PDF

S. Ishihara and K. Kaneko, "Turing pattern with proportion preservation", J. Theo. Biol. 238 (2006) 683-693 PDF

H. Takagi and K. Kaneko "Dynamical Systems Basis of Metamorphosis: Diversity and Plasticity of Cellular States in Reaction Diffusion Netowork" Journal of Theoretical Biology, 234, (2005) 173-186PDF

C. Furusawa and K. Kaneko " Robust Development as a Consequence of Generated Positional Information " J. Theor. Biol.224 (2003) 413-435(pdf file )

C. Furusawa and K. Kaneko " Origin of Multicellular Organisms as an Inevitable Consequence of Dynamical Systems " Anatomical Record, 268 (2002) 327-342 (pdf file )

C. Furusawa and K. Kaneko"Theory of Robustness of Irreversible Differentiation in a Stem Cell System: Chaos Hypothesis" J. Theor. Biol. (2001) 209 (2001) 395-416 (pdf file )

K Kaneko and C Furusawa ``Robust and Irreversible Development in Cell Society as a General Consequence of Intra-Inter Dynamics", Physica A 280 (2000) 23-33 (also available at http://arXiv.org/abs/chao-dyn/9912005)

C. Furusawa and K. Kaneko ``Origin of complexity in multicellular organisms", Phys. Rev. Lett. 84 (2000) 6130-6133 (pdf file )

C. Furusawa and K. Kaneko" Complex Orgnization in multicullarity as a necessity in evolution" Artificial Life, 6(2000) 265-281 (pdf file )

K. Kaneko and T. Yomo," ``Isologous Diversification for Robust Development of Cell Society", J.theor.Biol. 199 (1999) 243-256 (pdf file )

C. Furusawa and K. Kaneko ``Emergence of Rules in Cell Society: Differentiation, Hierarchy, and Stability" , Bull.Math. Biol., 60 (1998) 659-687 (pdf file )

C. Furusawa and K. Kaneko"``Emergence of Multicellular Organism: Dynamic differentiation and Spatial Pattern", Artificial Life 4, (1998), 79-93

K. Kaneko and T. Yomo," ``Isologous Diversification: A Theory of Cell Differentiation ", Bull.Math.Biol. 59 (1997) 139-196 (pdf file )

K. Kaneko" Coupled Maps with Growth and Death: An Approach to Cell Differentiation",," Physica 103 D(1997) 505-527 (pdf file )

K. Kaneko and T. Yomo," ` Cell Division, Differentiation, and Dynamic Clustering", Physica 75 D (1994), 89-102 (pdf file )

1.2 Reproduction ---Heredity, Statistical Laws in gene expression

S.Tsuru, J.Ichinose, T. Sakurai, A.Kashiwagi, B-W. Ying, K. Kaneko, and T. Yomo " ``Noise in cellular growth rates governs the fluctuation of cellular protein concentrations" Physical Biology, in press.

B. Pfeuty and K. Kaneko, ``Minimal requirements for a robust cell size control in eukaryotic cells" Physical Biology, 4 (2007) 194-204 PDF

C.Furusawa and K. Kaneko "Evolutionary origin of power-laws in Biochemical Reaction Network; embedding abundance distribution into topology" Phys. Rev. E 73, (2006) 011912PDF

K. Kaneko" On Recursive Production and Evolvabilty of Cells: Catalytic Reaction Network Approach " Adv. Chem. Phys. , 130 (2005) 543-598 (pdf file )

K. Sato and K. Kaneko, "On the Distribution of State Values of Reproducing Cells" Physical Biology 3 (2006) 74-82 PDF

C. Furusawa, T. Suzuki, A. Kashiwagi, T. Yomo, and K. Kaneko " Ubiquity of Log-normal Distributions in Intra-cellular Reaction Dynamics " BIOPHYSICS, 1(2005) 25 PDF

K. Kaneko " Recursiveness, Switching, and Fluctuations in a Replicating Catalytic Network" Phys. Rev. E., 68 (2003) 031909 (pdf file )

K. Kaneko " Recursiveness and Evolvability in Mutually Catalytic Reaction System " Adv. in Complex Systems, Vol.6-No.1(2003)79-92 (pdf file )

C. Furusawa and K. Kaneko " Zipf's law in Gene Expression " Phys. Rev. Lett., 90 (2003) 088102 (pdf file )

K. Kaneko " ; Kinetic Origin of Heredity in a Replicating System with a Catalytic Network " J Biol. Phys., 28 (2002) 781-792 (pdf file )

K. Kaneko and T. Yomo "On a Kinetic Origin of Heredity:Minority Control in a Replicating System with Mutually Catalytic Molecules" J.theor.Biol. 214(2002)563-576 (pdf file )

1.2 Adaptation

C. Furusawa and K. Kaneko, ``A generic mechanism for adaptive gowth rate regulation", PLoS Computationa Biology, 4(2008) e3 html PDF (selected for Faculty of 1000 Biology http://www.f1000biology.com/article/id/1104005 )

A. Kashiwagi, I. Urabe, K. Kaneko and T. Yomo " Adaptive response of a gene network to environmental changes by attractor selection " PLOS ONE 1 (2006) e49 PDF

M. Inoue and K. Kaneko " ``Conditions for Chemotactic Aggregation", Phys.Rev E., 77(2008) 141916 PDF

M. Inoue and K. Kaneko, Condition for Intra-cellular Adaptive Dynamics for Chemotaxis, Phys. Rev. E., 74 (2006) 011903 PDF

1.3 Evolution

A. Sakata, K Hukushima, and K. Kaneko " '' A statistical-mechanical study of evolution of robustness in noisy environment" submitted to Phys. Rev. E., PDF

A. Sakata, K Hukushima, and K. Kaneko " '' Funnel landscape and mutational robustness as a result of evolution under thermal noise'', Phys. Rev. Lett., 102 (2009) 148101 PDF

Y.Ito, H.Toyota, K. Kaneko, and T. Yomo " ``How Selection affects Phenotypic Fluctuation" Molecular Systems Biology, Molecular Systems Biology, 5 (2009) 264; html (Main text) ; html (Supporting Information)

K. Kaneko " ``Relationship among Phenotypic Plasticity, Genetic and Epigenetic Fluctuations, Robustness, and Evolovability; Waddington's Legacy revisited under the Spirit of Einstein" J Biological Science, in press. PDF

K. Kaneko " ``Shapring Robust System Through Evolution", 18 (2008) 026112 PDF

K. Fujimoto, S. Ishihara, and K. Kaneko " ``Network Evolution of Body Plans", PLoS ONE, 3 (2008) e2772 html PDF

K. Kaneko, Evolution of Robustness to Noise and Mutation in Gene Expression Dynamics, PLoS One(2007) 2 e434. html

K. Sato and K. Kaneko, ``Evolution Equation of Phentype Distribution: General Formulation and Application to Error Catastrophe", Phys. Rev. E75 (2007) 061909 PDF

D. Lawson, H.J. Jensen and K. Kaneko, "Diversity as a product of interspecial interactions" J theor. Biol. 243(2006) 299-307 PDF

K. Kaneko and C. Furusawa, "An Evolutionary Relationship between Genetic Variation and Phenotypic Fluctuation", J. Theo. Biol. 240 (2006) 78-86 PDF

C.Furusawa and K. Kaneko "Evolutionary origin of power-laws in Biochemical Reaction Network; \ embedding abundance distribution into topology" Phys. Rev. E 73, (2006) 011912PDF

K. Sato, Y. Ito, T. Yomo, and K. Kaneko " On the Relation between Fluctuation and Response in Biological Systems " Proc. Nat. Acad. Sci. USA 100 (2003) 14086-14090 (pdf file )

K. Kaneko and T. Yomo "Genetic Diversification through Interaction-driven Phenotype Differentiation" Evol Eco. Res., 4 (2002) 317-350 (pdf file )

K. Kaneko " Symbiotic Sympatric Speciation: Compliance with Interaction-driven Phenotype Differentiation from a Single Genotype " Population Ecology, 44 (2002) 71-85 (pdf file )

H. Takagi, K. Kaneko, and T. Yomo"Evolution of genetic code through isologous diversification of cellular states" Artificial Life 6(2000) 283-305 (pdf file )

Kunihiko Kaneko and Tetsuya Yomo ``Sympatric Speciation: compliance with phenotype diversification from a single genotype ", Proc. Roy. Soc. B, 267 (2000) 2367-2373; (pdf file )

1.4 General

K. Kaneko and C. Furusawa " `` Relevance of Phenotypic Noise to Adaptation and Evolution" (review) IET Systems Biology, 2 (2008) 234-246. PDF

K. Kaneko and C. Furusawa " `` Consistency Principle in Biological Dynamical Systems" Theory in Biosciences, 127 (2008) 195-204. PDF

K. Kaneko ``Organization through Intra-Inter Dynamics" in Origination of Organismal Form: Beyond the Gene in Developmental and Evolutionar y Biology (The Vienna Series in Theoretical Biology) (MIT press, 2003) eds. G. Mueller and S. Newman

1.5 Other topics in biological systems and artifical life

K. Kaneko and T. Ikegami," Homeochaos: Dynamics Stability of a symbiotic network with population dynamics and evolving mutation rates" Physica 56 D (1992) , 406-429 (pdf file )

W. Li and K. Kaneko, " `Long-Range Correlation and Partial1/f ${\alpha }$Spectrum in a Non-Coding DNA Sequence", Europhys. Lett. 17 (1992) 655-660 (pdf file )

T. Ikegami and K. Kaneko, "Genetic Fusion", Phys. Rev. Lett. 65 (1990) 3352-3355 (pdf file )

K. Kaneko and J. Suzuki," Evolution to the Edge of Chaos in Imitation Game, Artificial Life III (1993) 43-54 (pdf file )

K. Kaneko and J. Suzuki," Imitation games" Physica D 75 (1994) 328-342 (pdf file )

W.Li, T.G. Marr, and K. Kaneko "Understanding Long-range Correlations in DNA Sequences", Physica 75D (1994) 392-416

K. Kaneko, "Chaos as a Source of Complexity and Diversity in Evolution", Artificial Life 1 (1994) 163-177

T.Yamamoto and K. Kaneko," Tile automaton inthe well-mixed medium" Physica D 181 (2003) 252-273 (pdf file )

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