MCell 3.3 Released

MCell 3.3.0 Released

MCell version 3.3.0 has been released.  For more information on MCell and to download version 3.3.0, see the MMBioS software page.



Cell Modeling Research Highlights

Pre-post synaptic alignment through neuroligin-1 tunes synaptic transmission efficiency

TR&D2 investigators and collaborators describe organizing role of neuroligin-1 to align post-synaptic AMPA Receptors with pre-synaptic release sites into trans-synaptic “nano-columns” to enhance signaling.(Read more)


BioNetGen Gives Insight into Immune System

A mix of modeling with BioNetGen and laboratory experiments has painted a sharper picture of how T cells decide when to protect the body from immune attack —and when to lead the attack.  Read more


Memory Capacity of Brain 10 Times More than Previously Thought

MMBioS members Terry Sejnowski and Tom Bartol, along with other Salk Institute collaborators, have achieved critical insight into the size of neural connections, putting the memory capacity of the brain far higher than common estimates.  Read more


Improved Sampling of Cell-Scale Models using the Weighted Ensemble Strategy

The “weighted ensemble” (WE) strategy for orchestrating a large set of parallel simulations has been established as an effective tool for efficiently calculating kinetic and equilibrium observables in molecular systems – and now has been extended to spatially resolved cell-scale systems by MMBioS researchers. Read more


Development and improvements to MCell

MCell is a modeling and simulation platform which provides the core capabilities for spatial simulation reaction-diffusion dynamics at complex biological interfaces. Recent improvements include libMCell, an MCell testing framework and new simulation capabilities that extend the range of simulations that can be performed. Read more


Development of CellBlender

CellBlender is a graphical interface for model construction, simulation, and analysis of complex spatial models of reaction-diffusion systems. The interface has been redesigned and functionality expanded. Read more



figure good 170Synaptic Facilitation Revealed

An investigation of several mechanisms of short-term facilitation at the frog neuromuscular junction concludes that the presence of a second class of calcium sensor proteins distinct from synaptotagmin can explain known properties of facilitation.  Read more



Junction Crossing Ahead

Synapses are the connections between neurons in the brain or between neurons and muscle more.



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