Mechanisms underlying subunit independence in pyramidal neuron dendrites (Behabadi and Mel 2014)

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Accession:167694
"...Using a detailed compartmental model of a layer 5 pyramidal neuron, and an improved method for quantifying subunit independence that incorporates a more accurate model of dendritic integration, we first established that the output of each dendrite can be almost perfectly predicted by the intensity and spatial configuration of its own synaptic inputs, and is nearly invariant to the rate of bAP-mediated 'cross-talk' from other dendrites over a 100-fold range..."
Reference:
1 . Behabadi BF, Mel BW (2014) Mechanisms underlying subunit independence in pyramidal neuron dendrites. Proc Natl Acad Sci U S A 111:498-503 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Synapse; Dendrite;
Brain Region(s)/Organism:
Cell Type(s): Neocortex V1 L6 pyramidal corticothalamic cell;
Channel(s): I Sodium; I Potassium;
Gap Junctions:
Receptor(s): AMPA; NMDA;
Gene(s):
Transmitter(s): Glutamate;
Simulation Environment: NEURON; Python;
Model Concept(s): Dendritic Action Potentials; Spatio-temporal Activity Patterns; Parameter Fitting; Simplified Models; Active Dendrites; Detailed Neuronal Models; Action Potentials; Synaptic Integration;
Implementer(s): Behabadi, Bardia [bardiafb+mdb at gmail.com];
Search NeuronDB for information about:  Neocortex V1 L6 pyramidal corticothalamic cell; AMPA; NMDA; I Sodium; I Potassium; Glutamate;
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bfb-bwm-2014
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This is the model associated with the paper:

Behabadi BF, Mel BW
Mechanisms underlying subunit independence in pyramidal neuron dendrites
PNAS. 2014;111(1)

The code here reproduces Figures 2b-e, 4b-e, and S5b-f from the paper.

Usage:
./runall.sh
# This will generate 42 h5 files and 44 pkl files in data/ and 3 png files in figs/

Dependencies:
NEURON 7.0 - 7.3
Python 2.5 - 2.7
Numpy 1.5.1 - 1.7.1
PyTables 2.1.2 - 2.4.0
Matplotlib 1.0.1 - 1.1.1

Notes: 
Figures 2 and S5 may not exactly match those in paper due to PRNG issues.
Will likely work with other versions of above dependencies with minor tweaks.

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