Many important physiological processes operate at time and space scales far beyond those
accessible to atom-realistic simulations, and yet discrete stochastic rather than continuum …

… With MCell’s MDL, rate constants are input as conventional bulk solution values, in units
of (M–1 ·s–1) for bimolecular associations (ie, ligand binding, k+n values in Figure 4.1), or (s–1) …

10.7554/eLife.10778.001 Information in a computer is quantified by the number of bits that
can be stored and recovered. An important question about the brain is how much information …

We have developed a biophysically realistic model of receptor activation at an idealized
central glutamatergic synapse that uses Monte Carlo techniques to simulate the stochastic …

Neurotransmitter release is well known to occur at specialized synaptic regions that include
presynaptic active zones and postsynaptic densities. At cholinergic synapses in the chick …

The nanoscale organization of neurotransmitter receptors regarding pre-synaptic release
sites is a fundamental determinant of the synaptic transmission amplitude and reliability. How …

Although the extracellular space in the neuropil of the brain is an important channel for volume
communication between cells and has other important functions, its morphology on the …

The crowded intracellular environment poses a formidable challenge to experimental and
theoretical analyses of intracellular transport mechanisms. Our measurements of single-…

A computational model is presented for the simulation of three-dimensional electrodiffusion
of ions. Finite volume techniques were used to solve the Poisson-Nernst-Planck equation, …

We have built a stochastic model in the program MCell that simulates Ca 2+ transients in
spines from the principal molecular components believed to control Ca 2+ entry and exit. …