Olfactory bulb microcircuits model with dual-layer inhibition (Gilra & Bhalla 2015)

 Download zip file 
Help downloading and running models
Accession:153574
A detailed network model of the dual-layer dendro-dendritic inhibitory microcircuits in the rat olfactory bulb comprising compartmental mitral, granule and PG cells developed by Aditya Gilra, Upinder S. Bhalla (2015). All cell morphologies and network connections are in NeuroML v1.8.0. PG and granule cell channels and synapses are also in NeuroML v1.8.0. Mitral cell channels and synapses are in native python.
Reference:
1 . Gilra A, Bhalla US (2015) Bulbar microcircuit model predicts connectivity and roles of interneurons in odor coding. PLoS One 10:e0098045 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Olfactory bulb;
Cell Type(s): Olfactory bulb main mitral GLU cell; Olfactory bulb main interneuron periglomerular GABA cell; Olfactory bulb main interneuron granule MC GABA cell;
Channel(s): I A; I h; I K,Ca; I Sodium; I Calcium; I Potassium;
Gap Junctions:
Receptor(s): AMPA; NMDA; Gaba;
Gene(s):
Transmitter(s): Gaba; Glutamate;
Simulation Environment: Python; MOOSE/PyMOOSE;
Model Concept(s): Sensory processing; Sensory coding; Markov-type model; Olfaction;
Implementer(s): Bhalla, Upinder S [bhalla at ncbs.res.in]; Gilra, Aditya [aditya_gilra -at- yahoo -period- com];
Search NeuronDB for information about:  Olfactory bulb main mitral GLU cell; Olfactory bulb main interneuron periglomerular GABA cell; Olfactory bulb main interneuron granule MC GABA cell; AMPA; NMDA; Gaba; I A; I h; I K,Ca; I Sodium; I Calcium; I Potassium; Gaba; Glutamate;
/
olfactory-bulb-gilra-bhalla
cells
PG_nrn
readme.txt *
hpg.mod *
kamt.mod *
kdrmt.mod *
naxn.mod *
nmdanetOB.mod *
TCa_d.mod *
coeff-table.txt *
forfig3.hoc *
gc.hoc *
Level2.xml
mitral.hoc *
mitral_davison2007_neurml_L1.xml
mod_func.c
mosinit.hoc *
nrnmech.dll
PGsimple_aditya2010_neuroML_L1_L2.xml
PGTest_nrn.py
                            
NEURON mod files from the paper:

Michele Migliore and Gordon M Shepherd
Dendritic action potentials connect distributed dendrodendritic microcircuits
J. Comp. Neurosci. (2007) (online first).

The simulation file can be used to reproduce the bottom left histogram
in Fig.3,representing the M2 mitral cell firing in the presence of the
GCs network.  In the simulation window, "odor" is the number of odor
input (3-11), and traces for the 3 Mitral cells are plotted using
different colors.

To start, auto-launch from ModelDB or

Under unix systems:
to compile the mod files use the command 
nrnivmodl 
and run the simulation hoc file with the command 
nrngui mosinit.hoc

Under Windows systems:

to compile the mod files use the "mknrndll" program on the folder
expanded from this archive, then double click on the simulation file
mosinit.hoc to start the simulation.

Under MAC OS X:

Expand the MC-GC.zip archive after downloading it.  Drag the MC-GC
folder onto the mknrndll icon in the NEURON application folder.  Drag
the mosinit.hoc file in the MC-GC folder onto the nrngui icon in the
NEURON application folder.

For each platform:

Enter the odor number next to the odor button, press Run, and count
the number of M2 APs (red trace).  Repeat for odors 3 through 11.

Questions on how to use this model
should be directed to michele.migliore@pa.ibf.cnr.it