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Small world networks of model neurons from the paper
Andrew Bogaard, Jack Parent, Michal Zochowski, and Victoria Booth
Interaction of Cellular and Network Mechanisms in Spatiotemporal
Pattern Formation in Neuronal Networks J. Neurosci. 29: 1677-1687;
doi:10.1523/JNEUROSCI.5218-08.2009
Implemented with NEURON 5.9, four model neurons with varying
excitability properties affect the spatiotemporal patterning of small
world networks of homogeneous and heterogeneous cell population.
Usage:
Either autolaunch from ModelDB after NEURON is installed or
1. Unzip bogaard2009.zip into an empty directory
2. Compile mod files
3. Double click on either homrun.hoc or hetrun.hoc to run homogeneous
or heterogeneous networks, respectively. Each should finish in a
matter of minutes (25 secs on a 2.4 MHz dual intel P8600), depending
on computer speed.
homrun.hoc will generate
and hetrun.hoc will generate
How to Compile Mod Files
unix: use command nrnivmodl
windows: run mknrndll.hoc and follow instructions
homrun.hoc Print to screen raster plots depicting
differing activity of four homogeneous networks with different cell
composition for same network parameters.
hetrun.hoc Print to screen raster plot of switching
activity similar to that in Fig 8.E
modelspecs.hoc Model neuron templates
homrig.hoc Homogeneous network source code
hetrig.hoc Heterogeneous network source code
Questions on how to use this model should be directed to
abogaard@umich.edu
Discrepancies in publication/supplemental material:
I_Kdr gating variable is described as n^4, but is n (to the first
power) in the model.
Dendrite radius is given as 12um, but the diameter is 12um in the
model.
I_Na gating variable m time constant is given as .2ms, but is .02 in
the model.
The K_A equation which reads (1 + exp(V + 40)/5))^-1 is missing a
parenthesis and should read (1 + exp((V + 40)/5))^-1.
g_Ih for cells A and B are switched in Table 1.
g_IKdr for cell A is given as .2S/cm^2 but is .1 in the model.
Figure 1 indicates indicates unit mA, which should be nA.
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