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There has been a long debate on how new levels of organization have evolved. It might seem unlikely, as cooperation must prevail over competition. One well-studied example is the emergence of autocatalytic sets, which seem to be a…
The user equilibrium traffic assignment principle is very important in the traffic assignment problem. Mathematical programming models are designed to solve the user equilibrium problem in traditional algorithms. Recently, the Physarum…
A mathematical model to describe period-memorizing behavior in Physarum plasmodium are reported. In constructing the model, we first examine the basic characteristics required for the class of models, then create a minimal linear model to…
Physarum polycephalum inspired algorithm (PPA), also known as the Physarum Solver, has attracted great attention. By modelling real-world problems into a graph with network flow and adopting proper equations to calculate the distance…
Many foraging microorganisms rely upon cellular transport networks to deliver nutrients, fluid and organelles between different parts of the organism. Networked organisms ranging from filamentous fungi to slime molds demonstrate a…
Slime mould Physarum polycephalum builds up sophisticated networks to transport nutrients between distant part of its extended body. The slime mould's protoplasmic network is optimised for maximum coverage of nutrients yet minimum energy…
The inclusion of a macroscopic adaptive threshold is studied for the retrieval dynamics of both layered feedforward and fully connected neural network models with synaptic noise. These two types of architectures require a different method…
Thanks to recent technological advances, it is now possible to track with an unprecedented precision and for long periods of time the movement patterns of many living organisms in their habitat. The increasing amount of data available on…
Multi-nucleated cells exist in all domains of life, ranging from animals, plants and fungi to single-celled organisms such as the slime mold Physarum polycephalum. The large cell size, in the case of Physarum reaching centimeters and more,…
Collective animal movement fascinates children and scientists alike. One of the most commonly given explanations for collective animal movement is improved foraging. Animals are hypothesized to gain from searching for food in groups. Here,…
How do non-neural organisms, such as the slime mould \textit{Physarum polycephalum}, anticipate periodic events in their environment? We present a minimal, biologically inspired reservoir model that demonstrates simple temporal anticipation…
Artificially evolving foraging behavior in simulated legged animals has proved to be a notoriously difficult task. Here, we co-evolve the morphology and controller for virtual organisms in a three-dimensional physically realistic…
Living organisms survive and multiply even though they have uncertain and incomplete information about their environment and imperfect models to predict the consequences of their actions. Bayesian models have been proposed to face this…
The inclusion of a macroscopic adaptive threshold is studied for the retrieval dynamics of layered feedforward neural network models with synaptic noise. It is shown that if the threshold is chosen appropriately as a function of the…
The origin of life poses a problem of combinatorial feasibility: How can temporally supported functional organization arise in exponentially branching assembly spaces when unguided exploration behaves as a memoryless random walk? We show…
In this paper, the parameter estimation problem for a multi-timescale adaptive threshold (MAT) neuronal model is investigated. By manipulating the system dynamics, which comprise of a non-resetting leaky integrator coupled with an adaptive…
Experimental and empirical observations on cell metabolism cannot be understood as a whole without their integration into a consistent systematic framework. However, the characterization of metabolic flux phenotypes is typically reduced to…
We introduce a methodology to study the possible matter flows of an ecosystem defined by observational biomass data and realistic biological constraints. The flows belong to a polyhedron in a multi dimensional space making statistical…
This paper introduces Polyphorm, an interactive visualization and model fitting tool that provides a novel approach for investigating cosmological datasets. Through a fast computational simulation method inspired by the behavior of Physarum…
The nature inspired algorithms are becoming popular due to their simplicity and wider applicability. In the recent past several such algorithms have been developed. They are mainly bio-inspired, swarm based, physics based and…