A computational model of oxytocin modulation of olfactory recognition memory (Linster & Kelsch 2019)

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Accession:257940
Model of olfactory bulb (OB) and anterior olfactory nucleus (AON) pyramidal cells. Includes olfactory sensory neurons, mitral cells, periglomerular, external tufted and granule interneurons and pyramidal cells. Can be built to include a feedback loop between OB and AON. Output consists of voltage and spikes over time in all neurons. Model can be stimulated with simulated odorants. The code submitted here has served for a number of modeling explorations of olfactory bulb and cortex. The model architecture is defined in "bulb.dat" with synapses defined in "channels.dat". The main function to run the model can be found in "neuron.c". Model architecture is constructed in "set.c" from types defined in "sim.c". A make file to create an executable is located in "neuron.mak".
Reference:
1 . Linster C, Kelsch W (2019) A computational model of oxytocin modulation of olfactory recognition memory. eNeuro [PubMed]
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; Olfactory bulb main interneuron granule TC GABA cell; Olfactory bulb main tufted cell external;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: C or C++ program;
Model Concept(s):
Implementer(s): Linster, Christiane [cl243 at cornell.edu];
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; Olfactory bulb main interneuron granule TC GABA cell;
#include "cell.init"


/** sets foreground to a specific color (0: balck, 1: white) **/
/** predefined colors (palette = 1) are indexed from 300 - 315, user defined colors **/
/** (palette = 2) are indexed from 400 - 400+NCOLORS2-1 **/

void SET_COLOR (color, palette)
int color, palette;
{
int i;
  if ((palette == 1) && (color > 1))
    {
      i = color - 300;
      if (i > NCOLORS1)
	printf (" wrong color allocation \n");
      i = color_offset1[i];
    }
  if ((palette == 2) && (color > 1))
    {
      i = color - 400;
      if (i > NCOLORS2)
	printf (" wrong color allocation \n");
      i = color_offset2[i];
    }
  if (color > 1)
  XSetForeground (DISPLAY, CONTEXT, i);
else 
  if (color == 0)
    XSetForeground (DISPLAY, CONTEXT, BlackPixelOfScreen (DefaultScreenOfDisplay (DISPLAY)));
else
  if (color == 1)
    XSetForeground (DISPLAY, CONTEXT, WhitePixelOfScreen (DefaultScreenOfDisplay (DISPLAY)));

    

}


/** stores 16 predefined colors (as defined in gra.init ) **/ 

void COULEURS ()

{
        unsigned long  cellules[16];
	int ncouleurs;
	XColor	col;
	XColor  colors[16];
	int 	i;

	color_offset1 = (int *) calloc (16, sizeof (int));

	ncouleurs = XDisplayCells(DISPLAY, DefaultScreen (DISPLAY));

	XAllocColorCells(DISPLAY, 
			 DefaultColormap(DISPLAY, DefaultScreen (DISPLAY)), 
			 True,		/* True = cellules contigues */
			 NULL, 		/* plane mask return */
			 0, 	        /* nplanes */
			 cellules,      /* pixels_return */
			 16);
	for (i=0;i<=16;i++)
	     color_offset1[i] = cellules[i];
	 col.flags = DoRed|DoGreen|DoBlue;
	 
        col.red = 65535;	col.green = 0;		col.blue = 0;		col.pixel=cellules[0];	colors[0]=col;
	col.red = 0;		col.green = 65535;	col.blue = 0;		col.pixel=cellules[1];	colors[1]=col;
	col.red = 0;		col.green = 0;		col.blue = 65535;	col.pixel=cellules[2];	colors[2]=col;
	col.red = 65535;	col.green = 65535;	col.blue = 0;		col.pixel=cellules[3];	colors[3]=col;
	
        col.red = 40000;	col.green = 16000;	col.blue = 60000;	col.pixel=cellules[4];	colors[4]=col;
	col.red = 65000;	col.green = 33000;	col.blue = 0;		col.pixel=cellules[5];	colors[5]=col;
	col.red = 65000;	col.green = 0;		col.blue = 65000;	col.pixel=cellules[6];	colors[6]=col;
	col.red = 0;		col.green = 65535;	col.blue = 65000;	col.pixel=cellules[7];	colors[7]=col;
	
	col.red = 33000;	col.green = 33000;	col.blue = 33000;	col.pixel=cellules[8];	colors[8]=col;
	col.red = 0;		col.green = 40000;	col.blue = 45000;	col.pixel=cellules[9];	colors[9]=col;
	col.red = 65000;	col.green = 45000;	col.blue = 45000;	col.pixel=cellules[10];	colors[10]=col;
	col.red = 33000;	col.green = 0;		col.blue = 0;		col.pixel=cellules[11];	colors[11]=col;
	
	
	col.red = 0;		col.green = 33000;	col.blue = 0;		col.pixel=cellules[12];	colors[12]=col;
        col.red = 0;		col.green = 0;		col.blue = 33000;	col.pixel=cellules[13];	colors[13]=col;
	col.red = 65000;	col.green = 57000;	col.blue = 46000;	col.pixel=cellules[14];	colors[14]=col;
	col.red = 39000;	col.green = 27000;      col.blue = 27000;	col.pixel=cellules[15];	colors[15]=col;

	XStoreColors(DISPLAY, DefaultColormap(DISPLAY, DefaultScreen (DISPLAY)), colors, 16);
	NCOLORS1 = 16;

}

/** loads colors defined in file "filename" **/
/** first line of file contains number of colors in file, **/
/** subsequent lines integer values for red, green and blue pixels **/

void COLORMAP (filename)
char *filename;
{
FILE *read_from;
int nr, ng, nb;
        unsigned long  *cellules;
	int ncouleurs;
	XColor	col;
	XColor  *colors;
	int 	i;
        if ((read_from = fopen (filename, "r")) == NULL)
	  {
	    printf (" error in open file \n");
	    exit (0);
	  }
        fscanf (read_from, "%d", &ncouleurs);
	color_offset2 = (int *) calloc (ncouleurs, sizeof (int));
        colors = (XColor *) calloc (ncouleurs, sizeof (XColor));
        cellules = (unsigned long * ) calloc (ncouleurs, sizeof (unsigned long));
	XAllocColorCells(DISPLAY, 
			 DefaultColormap(DISPLAY, DefaultScreen (DISPLAY)), 
			 True,		/* True = cellules contigues */
			 NULL, 		/* plane mask return */
			 0, 	        /* nplanes */
			 cellules,      /* pixels_return */
			 ncouleurs);
	for (i = 0; i <= ncouleurs; i++)
	     color_offset2[i] = cellules[i];
	
        col.flags = DoRed|DoGreen|DoBlue;

        for (i = 0; i < ncouleurs; i++)
	  {
	    fscanf (read_from, "%d %d %d", &nr, &ng, &nb);
	    col.red = nr; col.green = ng; col.blue = nb; col.pixel = cellules[i]; colors[i] = col;
	  }
        fclose (read_from);
	 
	XStoreColors(DISPLAY, DefaultColormap(DISPLAY, DefaultScreen (DISPLAY)), colors, ncouleurs);
        NCOLORS2 = ncouleurs;
}

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