Distinct current modules shape cellular dynamics in model neurons (Alturki et al 2016)

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Accession:223649
" ... We hypothesized that currents are grouped into distinct modules that shape specific neuronal characteristics or signatures, such as resting potential, sub-threshold oscillations, and spiking waveforms, for several classes of neurons. For such a grouping to occur, the currents within one module should have minimal functional interference with currents belonging to other modules. This condition is satisfied if the gating functions of currents in the same module are grouped together on the voltage axis; in contrast, such functions are segregated along the voltage axis for currents belonging to different modules. We tested this hypothesis using four published example case models and found it to be valid for these classes of neurons. ..."
Reference:
1 . Alturki A, Feng F, Nair A, Guntu V, Nair SS (2016) Distinct current modules shape cellular dynamics in model neurons. Neuroscience 334:309-331 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Hippocampus; Amygdala;
Cell Type(s): Abstract single compartment conductance based cell;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Simplified Models; Activity Patterns; Oscillations; Methods; Olfaction;
Implementer(s):
/
AlturkiEtAl2016
4_LA
Original
ca.mod *
cadyn.mod
cal2.mod *
capool.mod *
cat.mod
currentclamp.mod *
function_TMonitor.mod *
h.mod
ICat2.mod *
Ikleaksd.mod *
im.mod
kadist.mod *
kaprox.mod
kdrca1.mod
kdrca1DA.mod
kdrinter.mod *
kdtx.mod
leak.mod *
leakDA.mod
leakinter.mod *
na.mod
na3.mod
na3DA.mod
nainter.mod *
nap.mod
nax.mod
naxDA.mod
sahp.mod
sahpNE.mod
graphics_lib.hoc *
main.hoc
main_LTO.hoc
onecompartment_template_with_osc.hoc
                            
//one-compartment cell template
//load_file("nrngui.hoc")
//The parameters in this model are based on Type C cell of 3-compartment model 


/////////////////////////////
///// Type A cell in LA /////
/////////////////////////////

begintemplate Cell_A

public soma, connect2target, type
public all

create soma
access soma // declares soma as a membrane compartment object
	public ncl, synlist
	objref ncl, synlist
	strdef type	

     /////biophysical properties/////
proc init() {

	create soma // create soma in the initialization
	ncl = new List()
	synlist =new List()		
	type = "Cell_A"
	
	gUnf_Xsoma = 2.5e-05
	Rm = 80000 // decreased overall
	SpineScale = 1.76371308 //2
	SpineScale_leak = 1.763714578
	RaAll= 200
	RaSoma= 146.969697 //200 
	RaAxIs = 100//100//200
	Vpas = -70//-65//-69 // -67
	gna =  0.041//.039//.03*0.6*1.5 //.03*0.6*1.5 /* decreased from 0.03 */
	AXONM = 3 /*decrease from 2 */
	gkdr = 0.005*.6 /* decreased from 0.005 */
	ghd=0.000003 *.7
	nash=10
	Vrest = -67
	celsius = 31.0 
	gsAHP = 0.0014//0.0005
	GmC = 0.0096//0.0085//0.006 //0.0035 //0.0006

     /////geometrical properties/////
soma {nseg = 1 L = 117.77 diam = 24.5} // L = 55.2
	
	soma {
		insert cadyn gcabar_cadyn = 6e-5  eca = 120
		insert leak el_leak=Vpas glbar_leak = 3.5e-5 /*2e-5*/ Ra=RaAll cm=2.5 //different values in the thress compartment model
		insert hd ghdbar_hd=2.3e-05 78.72884325  //ghd //only in dend and p_dend
		insert na3 sh_na3=nash ar_na3=1	gbar_na3=0.03//gna //soma and p_dend are different
		// insert na gnabar_na=0.03
		insert nap gbar_nap= 0.0003//0.00113//8e-4 //4.5e-4
		insert kdr gkdrbar_kdr=gkdr //same value in the three compartment model
		insert capool taucas = 1000  fcas_capool = 0.05 //only in dend and p_dend
		insert sAHP gsAHPbar_sAHP = 0.009//0.005 //0.008968224 //0.00015 //2.3181e-05 //different values in dend and p_dend
		insert im gmbar_im = 0.002//GmC //same value in the three compartment model
		insert kap gkabar_kap = 0.000843 //only in soma

		
		ena = 45
		ek = -80
		if (ismembrane("kdr") || ismembrane("kap") ) {ek=-80} //???
		if (ismembrane("hd") ) {ehd_hd=-43 } // change from -30 to -50 //???
		}
}
obfunc connect2target() { localobj nc
	soma nc = new NetCon(&v(0.5), $o1)
	nc.threshold = 0
	if (numarg() == 2) ($o2 = nc)
	return nc
	}
endtemplate Cell_A



/////////////////////////////
///// Type B cell in LA /////
/////////////////////////////

begintemplate Cell_B

public soma, connect2target, type
public all

create soma
access soma // declares soma as a membrane compartment object
	public ncl, synlist
	objref ncl, synlist
	strdef type	

     /////biophysical properties/////
proc init() {

	create soma // create soma in the initialization
	ncl = new List()
	synlist =new List()		
	type = "Cell_B"
	
	gUnf_Xsoma = 2.5e-05
	Rm = 80000 // decreased overall
	SpineScale = 1.76371308 //2
	SpineScale_leak = 1.763714578
	RaAll= 200
	RaSoma= 146.969697 //200 
	RaAxIs = 100//100//200
	Vpas = -70//-65//-69 // -67
	gna =  0.039//.03*0.6*1.5 //.03*0.6*1.5 /* decreased from 0.03 */
	AXONM = 3 /*decrease from 2 */
	gkdr = 0.005*.6 /* decreased from 0.005 */
	ghd=0.000003 *.7
	nash=10
	Vrest = -67
	celsius = 31.0 
	gsAHP = 0.0005
	GmC = 0.0096//0.0085//0.006 //0.0035 //0.0006

     /////geometrical properties/////
soma {nseg = 1 L = 117.77 diam = 24.5} // L = 55.2
	
	soma {
		insert cadyn gcabar_cadyn = 7e-5 /*6e-5*/  eca = 120
		insert iCat2 gbar_iCat2 = 0//6e-4 eca = 120
		insert leak el_leak=Vpas glbar_leak = 4.5e-5 /*2e-5*/ Ra=RaAll cm=2.5 //different values in the thress compartment model
		insert hd ghdbar_hd=2.3e-05 78.72884325  //ghd //only in dend and p_dend
		insert na3 sh_na3=nash ar_na3=1	gbar_na3=0.027//gna //soma and p_dend are different
		// insert na gnabar_na=0.027
		insert nap gbar_nap= 0.00012//0.00018//0.00113//8e-4 //4.5e-4
		insert kdr gkdrbar_kdr=0.005//gkdr //same value in the three compartment model
		insert capool taucas = 1000  fcas_capool = 0.05 //only in dend and p_dend
		insert sAHP gsAHPbar_sAHP = 0.00072//gsAHP //0.008968224 //0.00015 //2.3181e-05 //different values in dend and p_dend
		insert im gmbar_im = 0.000722//0.000725//0.001//GmC //same value in the three compartment model
		insert kap gkabar_kap = 0.000843 //only in soma

		
		ena = 45
		ek = -80
		if (ismembrane("kdr") || ismembrane("kap") ) {ek=-80} //???
		if (ismembrane("hd") ) {ehd_hd=-43 } // change from -30 to -50 //???
		}
}
obfunc connect2target() { localobj nc
	soma nc = new NetCon(&v(0.5), $o1)
	nc.threshold = 0
	if (numarg() == 2) ($o2 = nc)
	return nc
	}
endtemplate Cell_B


/////////////////////////////
///// Type C cell in LA /////
/////////////////////////////

begintemplate Cell_C

public soma, connect2target, type
public all

create soma
access soma // declares soma as a membrane compartment object
	public ncl, synlist
	objref ncl, synlist
	strdef type	

     /////biophysical properties/////
proc init() {

	create soma // create soma in the initialization
	ncl = new List()
	synlist =new List()		
	type = "Cell_C"
	
	gUnf_Xsoma = 2.5e-05
	Rm = 80000 // decreased overall
	SpineScale = 1.76371308 //2
	SpineScale_leak = 1.763714578
	RaAll= 200
	RaSoma= 146.969697 //200 
	RaAxIs = 100//100//200
	Vpas = -70//-65//-69 // -67
	gna =  0.039//.03*0.6*1.5 //.03*0.6*1.5 /* decreased from 0.03 */
	AXONM = 3 /*decrease from 2 */
	gkdr = 0.005*.6 /* decreased from 0.005 */
	ghd=0.000003 *.7
	nash=10
	Vrest = -67
	celsius = 31.0 
	gsAHP = 0.0014//0.0005
	GmC = 0.0096//0.0085//0.006 //0.0035 //0.0006

     /////geometrical properties/////
soma {nseg = 1 L = 117.77 diam = 24.5} // L = 55.2
	
	soma {
		insert cadyn gcabar_cadyn = 7e-5 /*6e-5*/  eca = 120
		insert leak el_leak=Vpas glbar_leak = 4e-5 /*2e-5*/ Ra=RaAll cm=2.5 //different values in the thress compartment model
		insert hd ghdbar_hd=2.3e-05 78.72884325  //ghd //only in dend and p_dend
		insert na3 sh_na3=nash ar_na3=1	gbar_na3=0.03//gna //soma and p_dend are different
		// insert na gnabar_na=0.03
		insert nap gbar_nap= 0.00014//0.0011//8e-4 //4.5e-4
		insert kdr gkdrbar_kdr=0.009//gkdr //same value in the three compartment model
		insert capool taucas = 1000  fcas_capool = 0.05 //only in dend and p_dend
		insert sAHP gsAHPbar_sAHP = 0.00025//0.0001 //0.008968224 //0.00015 //2.3181e-05 //different values in dend and p_dend
		insert im gmbar_im = 0.001//0.008 //same value in the three compartment model
		insert kap gkabar_kap = 0.000843 //only in soma

		
		ena = 45
		ek = -80
		if (ismembrane("kdr") || ismembrane("kap") ) {ek=-80} //???
		if (ismembrane("hd") ) {ehd_hd=-43 } // change from -30 to -50 //???
		}
}
obfunc connect2target() { localobj nc
	soma nc = new NetCon(&v(0.5), $o1)
	nc.threshold = 0
	if (numarg() == 2) ($o2 = nc)
	return nc
	}
endtemplate Cell_C

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