Related papers: Logical Modelling of Physarum Polycephalum
Plasmodium of Physarum polycephalum is a large single cell visible by unaided eye. It shows sophisticated behavioural traits in foraging for nutrients and developing an optimal transport network of protoplasmic tubes spanning sources of…
We present Monte Carlo Physarum Machine: a computational model suitable for reconstructing continuous transport networks from sparse 2D and 3D data. MCPM is a probabilistic generalization of Jones's 2010 agent-based model for simulating the…
Programmable biomolecule-mediated computing is a new computing paradigm as compared to contemporary electronic computing. It employs nucleic acids and analogous biomolecular structures as information-storing and -processing substrates to…
Unconventional physical computing is producing many novel and exotic devices that can potentially be used in a computational mode. Currently, these tend to be used to implement traditional models of computation, such as boolean logic…
Plasmodium of true slime mold, Physarum polycephalum, is an amoeboid organism, which spreads with developing tubular network structure and crawls on two-dimensional plane with oscillating the cell thickness. The plasmodium transforms its…
Modern biology and biomedicine are undergoing a big-data explosion needing advanced computational algorithms to extract mechanistic insights on the physiological state of living cells. We present the motivation for the Cell Physiome: a…
Motivated by recent experimental studies, we derive and analyze a twodimensional model for the contraction patterns observed in protoplasmic droplets of Physarum polycephalum. The model couples a model of an active poroelastic two-phase…
In this demo, we present a novel technique for approximating topologically optimal scaffoldings for 3D printed objects using a Monte Carlo algorithm based on the foraging behavior of the Physarum polycephalum slime mold. As a case study, we…
Acellular slime mould Physarum polycephalum is a popular now user-friendly living substrate for designing of future and emergent sensing and computing devices. P. polycephalum exhibits regular patterns of oscillations of its surface…
A series of simulations aimed at elucidating the self-assembly dynamics of spherical virus capsids is described. This little-understood phenomenon is a fascinating example of the complex processes that occur in the simplest of organisms.…
Plasmonic logic circuits combine ultrafast operation with nanoscale integration, making them a strong candidate for next-generation optical computing. Realizing this potential, however, requires overcoming practical challenges such as bulky…
Active fluid transport is a hallmark of many biological transport networks. While animal circulatory systems generally rely on a single heart to drive flows, other organisms employ decentralized local pumps to distribute fluids and…
Collective movement occurs in living systems where the simple movements of individual members of a pop- ulation are combined to generate movement of the collective as a whole, displaying complex dynamics which cannot be found in the…
We present a novel scheme for data processing which is well-suited for implementation at the nanometer scale. The logic circuits comprise two-state cellular units which are driven by externally applied updates, in contrast to earlier…
The computing paradigm invented for processing a small amount of data on a single segregated processor cannot meet the challenges set by the present-day computing demands. The paper proposes a new computing paradigm (extending the old one…
Transshipment problem is one of the basic operational research problems. In this paper, our first work is to develop a biologically inspired mathematical model for a dynamical system, which is first used to solve minimum cost flow problem.…
The giant single-celled amoeboid organism Physarum polycephalum constructs minimising transport networks but can also approximate the Voronoi diagram using two different mechanisms. In the first method Voronoi bisectors are rep- resented by…
The plasmodium of Physarum polycephalum is renowned for spanning sources of nutrients with networks of protoplasmic tubes. The networks transport nutrients and metabolites across the plasmodium's body. To imitate a hypothetical colonisation…
We advocate here the use of computational logic for systems biology, as a \emph{unified and safe} framework well suited for both modeling the dynamic behaviour of biological systems, expressing properties of them, and verifying these…
The increasing difficulty in continued development of digital electronic logic has led to a renewed interest in alternative approaches. Oscillatory computing is one such approach that leverages alternative physical systems and computation…