Modeling and simulation of molecular communication systems with a reversible adsorption receiver

Y Deng, A Noel, M Elkashlan… - … Biological, and Multi …, 2015 - ieeexplore.ieee.org
In this paper, we present an analytical model for the diffusive molecular communication (MC)
system with a reversible adsorption receiver in a fluid environment. The widely used …

Accurate particle-based simulation of adsorption, desorption and partial transmission

SS Andrews - Physical biology, 2009 - iopscience.iop.org
Particle-based simulators represent molecules of interest with point-like particles that diffuse
and react in continuous space. These simulators are often used to investigate spatial or …

Subdiffusion in a bounded domain with a partially absorbing-reflecting boundary

DS Grebenkov - Physical Review E—Statistical, Nonlinear, and Soft …, 2010 - APS
The exit time of a subdiffusive process from a bounded domain with a partially
absorbing/reflecting boundary is considered. The short-time and long-time behaviors of the …

Spatial and stochastic cellular modeling with the Smoldyn simulator

SS Andrews - Bacterial Molecular Networks: Methods and Protocols, 2012 - Springer
This chapter describes how to use Smoldyn, which is a computer program for modeling
cellular systems with spatial and stochastic detail. Smoldyn represents each molecule of …

Searching for partially reactive sites: Analytical results for spherical targets

DS Grebenkov - The Journal of chemical physics, 2010 - pubs.aip.org
How do single or multiple (sub) diffusing particles search for a target with a partially reactive
boundary? A finite reaction rate which is typical for many chemical or biochemical reactions …

Implementation issues of diffusion-based molecular communications receivers based on transcriptional elements

M Femminella, G Reali - Digital Signal Processing, 2022 - Elsevier
The recent research activities on molecular communications systems highlighted impressive
potentials for realizing new services in many fields. They include biomedical systems …

Enhancement of charged macromolecule capture by nanopores in a salt gradient

T Chou - The Journal of chemical physics, 2009 - pubs.aip.org
Nanopores spanning synthetic membranes have been used as key components in proof-of-
principle nanofluidic applications, particularly those involving manipulation of biomolecules …

Diffusion-dependent mechanisms of receptor engagement and viral entry

MM Gibbons, T Chou… - The Journal of Physical …, 2010 - ACS Publications
Enveloped viruses attach to host cells by binding to receptors on the cell surface. For many
viruses, entry occurs via membrane fusion after a sufficient number of receptors have …

Interaction of virus-like particles with vesicles containing glycolipids: kinetics of detachment

W Nasir, M Bally, VP Zhdanov, G Larson… - The Journal of Physical …, 2015 - ACS Publications
Many viruses interact with their host cells via glycosphingolipids (GSLs) and/or glycoproteins
present on the outer cell membrane. This highly specific interaction includes virion …

Synchronized oscillatory dynamics for a 1-D model of membrane kinetics coupled by linear bulk diffusion

J Gou, YX Li, W Nagata, MJ Ward - SIAM Journal on Applied Dynamical …, 2015 - SIAM
Spatial-temporal dynamics associated with a class of coupled membrane-bulk PDE-ODE
models in one spatial dimension is analyzed using a combination of linear stability theory …