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Altered complexity in layer 2/3 pyramidal neurons (Luuk van der Velden et al. 2012)
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<header>Neuron model to probe effects of altered dendritic complexity</header>
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<p>Author: Luuk van der Velden, University of Amsterdam, 2011</p>
<p>Reference paper: Altered dendritic complexity affects firing properties of cortical layer 2/3 pyramidal neurons in mice lacking the 5-HT3A receptor <a href="http://jn.physiology.org/content/108/5/1521">Link</a> </p>
<p>PubMed ID: 22696545</p>
<h1>Introduction:</h1>
<p>This model of a simplified layer 2/3 pyramidal model is based on earlier work by Mainen and Sejnowski (1996).<br>
It enables the manipulation of the dendritic complexity, as defined by the number of branch levels in the tree.<br>
The simplified model consists of binary symmetric dendritic trees with a fixed apical diameter.<br>
Rall's diameter rule is applied to calculate the diameters of the higher order branches.
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This model is provided <strong>as is</strong> and without warranty, purely for research and educational purposes, have fun!
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<h1>Motivation:</h1>
<p> The model was created to look at the effects of altered dendritic complexity in layer 2/3 pyramidal neurons.<br>
The 5-HT3A knockout mouse was previously shown to express increased dendritic complexity in its layer 2/3 pyramidal neurons.<br>
With this model we accompanied our experimental findings and showed that altered dendritic complexity could explain many of the electrophysiological differences we found.
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<h1>Model makeup:</h1>
<p>The model consists of a biophysical and morphological layout typical for cortical pyramidal neurons, based on previous efforts (a.o. Mainen and Sejnowski, 1996).<br>
We included calcium diffusion dynamics as described in the NEURON book (Carnevale and Hines, 2006).<br>
To allow study of dendritic complexity, the number of branch levels can be manipulated by changing the 'branch_levels' parameter from 0 to 6.<br>
The Rall diameter rule is applied to keep the dendritic trees passively equivalent.<br>
The model was written in one HOC file, with sections for Topology, Geometry, Biophysics, Instrumentation and Experimental control.<br>
It executes by calling its own initialization and run function, subsequently various parameters (voltages, calcium concentrations) are written to a text file, for further use.<br>
This model is identical to the one used to generate figures 4 (A to C) and figure 5.
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<h1>Usage:</h1>
<p>To start the simulation demo either auto-launch under ModelDB or<br/></p>
<p>Under unix systems:<br>
to compile the mod files use the command 'nrnivmodl' and run the simulation hoc file with the command 'nrngui altered_complexity_model.hoc'</p>
<p>Under Windows systems:<br>
To compile the mod files use the "mknrndll" command. A double click on the simulation file altered_complexity_model.hoc will open the simulation window.</p>
<p>Once the simulation has started:<br>
there is a brief pause and then you should see the following figure:
<br/><br/><img src="./screenshot.png" alt="screenshot"></p>
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