Newsflash

October 28 2012

Moose 2.0.0 "Kalakand" released!

More News

 
Gallery Print

Multiscale Modeling with MOOSE

 
MOOSE provides the capability to simulate coupled electrical-chemical compartmental models, which are particularly
relevant for neuronal plasticity. In these studies, the cell geometry is spatially subdivided for electrical and chemical
calculations, and distinct kinds of chemical network occupy different zones of the neuron. The electrical events,
through neurotransmitter release and calcium influx, affect the chemical signaling, and the chemical events, through
ion channel phosphorylation and receptor cycling, influence the electrical properties of the cell.
 

 Multiscale Modeling in MOOSE 
 
 

 

Biophysical model of rat olfactory bulb

Our detailed model having mitral, granule and peri-glomerular cells, shows how decorrelation and linearity of odour
responses, as seen experimentally by other lab-members, might emerge from network connectivity.
  
 

Olfactory Bulb Model

 Olfactory Bulb Model 
 
 

Olfactory Bulb Model: Two Glomeruli

Olfactary Bulb Model: Detail of 2 Glomeruli
 
 

 

MOOSE Graphical User Interface

MOOSE has a graphical user interface built using PyQt, along with 3D visualization of neurons using OpenGL.
Included is Kinetikit: a toolkit for viewing and editing Biochemical models. Also part of the GUI is Neurokit: a
graphical toolkit for managing neuronal simulations, and plotting their results.

 

Simulation of Purkinje Cell Model

MOOSE: Purkinje cell

 
 

Kinetikit 12: Viewing and Editing a Biochemical Model

MOOSE: Kinetikit 12 
 
 

Plotting

MOOSE GUI: Plots 
 
 


Interoperability and Standards

There are multiple standards for model specification at various levels and MOOSE supports three of them: the
GENESIS scripting language, SBML and NeuroML. Moreover, it aims to support the Network Interchange format
for NEuroscience (NineML) as the specification matures. In the absence of a common framework to combine
model components specified in different formats, the user has to put significant effort in developing composite
models and such models remain non-standard. However, as simulating composite models out of existing ones
becomes easier, it will be important for the community to find a way to integrate the existing standards for
maximum productivity. MOOSE is one of the first simulators with this cross-scale capability, and provides a key
test-bed for implementations of multiscale model definition standards.
 

 

 

Interoperability and Standards 

 

 

Copyright (C) NCBS/TIFR 2007-2012