Biophysically realistic neuron models for simulation of cortical stimulation (Aberra et al. 2018)

 Download zip file   Auto-launch 
Help downloading and running models
Accession:241165
This archive instantiates the single-cell cortical models used in (Aberra et al. 2018) and sets up extracellular stimulation with either a point-current source, to simulate intracortical microstimulation (ICMS), or a uniform E-field distribution, with a monophasic, rectangular pulse waveform in both cases.
Reference:
1 . Aberra AS, Peterchev AV, Grill WM (2018) Biophysically realistic neuron models for simulation of cortical stimulation. J Neural Eng 15:066023 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Axon;
Brain Region(s)/Organism: Neocortex; Barrel cortex;
Cell Type(s): Myelinated neuron;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Action Potential Initiation; Detailed Neuronal Models;
Implementer(s): Aberra, Aman [aman.aberra at duke.edu];
/* 
* Loads model files and creates GUI panels. Includes procedure for generating shape plots of cells
* AUTHOR: Aman Aberra, Duke University
* CONTACT: aman.aberra@duke.edu
*/

{load_file("nrngui.hoc")}
{load_file("interpCoordinates.hoc")}
{load_file("setPointers.hoc")}
{load_file("calcVe.hoc")}
{load_file("stimWaveform.hoc")}
{load_file("cellChooser.hoc")}
{load_file("setParams.hoc")}
{load_file("editMorphology.hoc")} // procs for editing cell morphology
{load_file("rig.ses")}

createPanels() // in setParams.hoc

objref soma_point3
// color_plotmax(plot_mode,save_fig)
// plot_mode: 1 colors nodes of Ranvier, Myelin, and Unmyelinated axon separately (default)
//            2 colors main axon in red, rest of axon black
// save_fig: 1 saves figure "cell<cell_id>.eps", 0 just plots (default)
proc color_plotmax() { local plot_mode,save_fig
	if (numarg() > 0){
        plot_mode = $1
    } else {
        plot_mode = 1 // default mode 1 
    }   
    if (numarg() > 1){
        save_fig = $2
    } else {
        save_fig = 0 // default don't save
    }
	load_file(0,"anatscale.hoc")
    anatscale(400,0,0,250)  // origin xyz and length	
    shplot = new Shape(0)
	shplot.view(-1568.93, -1200, 2837.86, 1700, 607, 93, 530, 320)
	shplot.color_list(cell.axonal,1)
    if (plot_mode == 1) {
        if (myelinate_ax) {
            shplot.color_list(iseg_secList,5)
            shplot.color_list(Node_secList,2)
            shplot.color_list(Myelin_secList,1)
            shplot.color_list(Unmyelin_secList,5) 
        }                      
    } else if (plot_mode == 2) {
        shplot.color_list(main_ax_list,2)	 
    }
	shplot.color_list(cell.apical,3)
	shplot.color_list(cell.basal,4)
	cell.soma soma_point3 = new IClamp(0.5)
	shplot.point_mark(soma_point3,1,"O",10)	        
    shplot.exec_menu("View = plot")    
	if (save_fig) {
		strdef cellfile
		sprint(cellfile,"Cell%g.eps",cell_id)		
		shplot.printfile(cellfile)
	}		
}


Loading data, please wait...