92 citations · 169 across the 15 of their papers we have counts for
15 papers
Thermodynamic and Stoichiometric Laws Ruling the Fates of Growing Systems
Atsushi Kamimura, Yuki Sughiyama, Tetsuya J. Kobayashi
We delve into growing open chemical reaction systems (CRSs) characterized by autocatalytic reactions within a variable volume, which changes in response to these reactions. Underst…
Information Geometry of Dynamics on Graphs and Hypergraphs
Tetsuya J. Kobayashi, Dimitri Loutchko, Atsushi Kamimura +2
We introduce a new information-geometric structure associated with the dynamics on discrete objects such as graphs and hypergraphs. The presented setup consists of two dually flat…
Geometry of Nonequilibrium Chemical Reaction Networks and Generalized Entropy Production Decompositions
Tetsuya J. Kobayashi, Dimitri Loutchko, Atsushi Kamimura +1
We derive the Hessian geometric structure of nonequilibrium chemical reaction networks (CRN) on the flux and force spaces induced by the Legendre duality of convex dissipation func…
Chemical Thermodynamics for Growing Systems
Yuki Sughiyama, Atsushi Kamimura, Dimitri Loutchko +1
We consider growing open chemical reaction systems (CRSs), in which autocatalytic chemical reactions are encapsulated in a finite volume and its size can change in conjunction with…
Kinetic Derivation of the Hessian Geometric Structure in Chemical Reaction Systems
Tetsuya J. Kobayashi, Dimitri Loutchko, Atsushi Kamimura +1
The theory of chemical kinetics form the basis to describe the dynamics of chemical systems. Owing to physical and thermodynamic constraints, chemical reaction systems possess vari…
A Hessian Geometric Structure of Chemical Thermodynamic Systems with Stoichiometric Constraints
Yuki Sughiyama, Dimitri Loutchko, Atsushi Kamimura +1
We establish a Hessian geometric structure in chemical thermodynamics which describes chemical reaction networks (CRNs) with equilibrium states. In our setup, the ideal gas assumpt…
Molecular Diversity and Network Complexity in Growing Protocells
Atsushi Kamimura, Kunihiko Kaneko
A great variety of molecular components is encapsulated in cells. Each of these components is replicated for cell reproduction. To address an essential role of the huge diversity o…
Horizontal transfer between loose compartments stabilizes replication of fragmented ribozymes
Atsushi Kamimura, Yoshiya J. Matsubara, Kunihiko Kaneko +1
The emergence of replicases that can replicate themselves is a central issue in the origin of life. Recent experiments suggest that such replicases can be realized if an RNA polyme…
Exponential growth for self-reproduction in a catalytic reaction network: relevance of a minority molecular species and crowdedness
Atsushi Kamimura, Kunihiko Kaneko
Explanation of exponential growth in self-reproduction is an important step toward elucidation of the origins of life because optimization of the growth potential across rounds of…
Inverse Relationship Between Molecular Diversity And Resource Abundances
Atsushi Kamimura, Kunihiko Kaneko
Cell reproduction involves replication of diverse molecule species, in contrast to simple replication system with fewer components. Here, we address why such diversity is sustained…
Transition to diversification by competition for resources in catalytic reaction networks
Atsushi Kamimura, Kunihiko Kaneko
All life, including cells and artificial protocells, must integrate diverse molecules into a single unit in order to reproduce. Despite expected pressure to evolve a simple system…
Quantification of group chasing and escaping process
S. Matsumoto, A. Kamimura, T. Nogawa +3
We study a simple group chase and escape model by introducing new parameters with which configurations of chasing and escaping in groups are classified into three characteristic pa…
Group Chase and Escape with Conversion from Targets to Chasers
Ryosuke Nishi, Atsushi Kamimura, Katsuhiro Nishinari +1
We are studying the effect of converting caught targets into new chasers in the context of the recently proposed `group chase and escape' problem. Numerical simulations have shown…
Reproduction of a Protocell by Replication of Minority Molecule in Catalytic Reaction Network
Atsushi Kamimura, Kunihiko Kaneko
For understanding the origin of life, it is essential to explain the development of a compartmentalized structure, which undergoes growth and division, from a set of chemical react…
Group Chase and Escape
Atsushi Kamimura, Toru Ohira
We describe here a new concept of one group chasing another, called "group chase and escape", by presenting a simple model. We will show that even a simple model can demonstrate ra…