Related papers: Physarum Chip: Developments in growing computers f…
Computing devices are composed of spatial arrangements of simple funda- mental logic gates. These gates may be combined to form more complex adding circuits and, ultimately, complete computer systems. Implementing classical adding circuits…
PYSCF is a Python-based general-purpose electronic structure platform that both supports first-principles simulations of molecules and solids, as well as accelerates the development of new methodology and complex computational workflows.…
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…
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,…
Belgium is amongst few artificial countries, established on purpose, when Dutch and French speaking parts were joined in a single unit. This makes Belgium a particularly interesting testbed for studying bio-inspired techniques for…
The slime mould Physarum polycephalum displays adaptive transport dynamics and network formation that have inspired its use as a model of biological computation. We develop a Lagrangian formulation of Physarum's adaptive dynamics on…
Optimization of fluid transport in the slime mold Physarum polycephalum has been the subject of several modeling efforts in recent literature. Existing models assume that the tube adaptation mechanism in P. polycephalum's tubular network is…
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…
Plasmodium of Physarum polycephalum is a single cell visible by unaided eye. During its foraging behaviour the cell spans spatially distributed sources of nutrients with a protoplasmic network. Geometrical structure of the protoplasmic…
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…
Computer simulations have become a very powerful tool for scientific research. Given the vast complexity that comes with many open scientific questions, a purely analytical or experimental approach is often not viable. For example,…
Microscopy, in particular scanning probe and electron microscopy, has been pivotal in improving our understanding of structure-function relationships at the nanoscale and is by now ubiquitous in most research characterization labs and…
We propose a road-map to experimental implementation of cytoskeleton-based computing devices. An overall concept is described in the following. Collision-based cytoskeleton computers implement logical gates via interactions between…
This paper is a brief update on developments in the BioDynaMo project, a new platform for computer simulations for biological research. We will discuss the new capabilities of the simulator, important new concepts simulation methodology as…
Wounding is a severe impairment of function, especially for an exposed organism like the network-forming true slime mould Physarum polycephalum. The tubular network making up the organism's body plan is entirely interconnected and shares a…
In laboratory experiments we demonstrate that protoplasmic tubes of acellular slime mould \emph{Physarum polycephalum} show current versus voltage profiles consistent with memristive systems and that the effect is due to the living…
The solutions of a system of polynomials in several variables are often needed, e.g.: in the design of mechanical systems, and in phase-space analyses of nonlinear biological dynamics. Reliable, accurate, and comprehensive numerical…
The Physarum solver is an intuitive mechanism for solving optimisation problems based on the idea of an electrical network, whereby the conductivity is reinforced by the current. We show that the Physarum solver obtains the solution to the…
This work introduces MICSim, an open-source, pre-circuit simulator designed for early-stage evaluation of chip-level software performance and hardware overhead of mixed-signal compute-in-memory (CIM) accelerators. MICSim features a modular…
This thesis centres on the development of multidimensional fluorescence imaging tools, with a particular emphasis on fluorescence lifetime imaging (FLIM) microscopy for application to biological research. The key aspects of this thesis are…