L5 PFC pyramidal neurons (Papoutsi et al. 2017)

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Accession:230811
" ... Here, we use a modeling approach to investigate whether and how the morphology of the basal tree mediates the functional output of neurons. We implemented 57 basal tree morphologies of layer 5 prefrontal pyramidal neurons of the rat and identified morphological types which were characterized by different response features, forming distinct functional types. These types were robust to a wide range of manipulations (distribution of active ionic mechanisms, NMDA conductance, somatic and apical tree morphology or the number of activated synapses) and supported different temporal coding schemes at both the single neuron and the microcircuit level. We predict that the basal tree morphological diversity among neurons of the same class mediates their segregation into distinct functional pathways. ..."
Reference:
1 . Papoutsi A, Kastellakis G, Poirazi P (2017) Basal tree complexity shapes functional pathways in the prefrontal cortex. J Neurophysiol 118:1970-1983 [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: Prefrontal cortex (PFC);
Cell Type(s): Neocortex L5/6 pyramidal GLU cell;
Channel(s): I A; I h; I L high threshold; I T low threshold; I N; I R; I K,Ca; I_AHP; I_Ks; I Na,p; I Na,t; I K;
Gap Junctions:
Receptor(s): AMPA; NMDA; GabaA; GabaB;
Gene(s):
Transmitter(s): Glutamate; Gaba;
Simulation Environment: NEURON;
Model Concept(s): Active Dendrites; Detailed Neuronal Models;
Implementer(s): Papoutsi, Athanasia [athpapoutsi at gmail.com];
Search NeuronDB for information about:  Neocortex L5/6 pyramidal GLU cell; GabaA; GabaB; AMPA; NMDA; I Na,p; I Na,t; I L high threshold; I N; I T low threshold; I A; I K; I h; I K,Ca; I_Ks; I R; I_AHP; Gaba; Glutamate;
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PapoutsiEtAl2017
mod_files
ampa.mod
ampain.mod
cad.mod
cal.mod
can.mod *
car.mod *
cat.mod *
gabaa.mod *
gabaain.mod
gabab.mod *
h.mod
iks_in.mod
kadist.mod *
kca.mod *
kct.mod *
kd.mod
kdr_in.mod
kdrD.mod *
naf.mod
naf_in.mod
nap.mod *
NMDA.mod
NMDA_syn.mod
vecstim.mod
                            
TITLE Ca R-type channel with medium threshold for activation
: used in distal dendritic regions, together with calH.mod, to help
: the generation of Ca++ spikes in these regions
: uses channel conductance (not permeability)
: written by Yiota Poirazi on 11/13/00 poirazi@LNC.usc.edu
:
: updated to use CVode by Carl Gold 08/10/03
:  Updated by Maria Markaki  03/12/03

NEURON {
	SUFFIX car
	USEION ca READ cai, cao WRITE ica
        RANGE gcabar, m, h,ica
	RANGE inf, fac, tau
}

UNITS {
	(mA) = (milliamp)
	(mV) = (millivolt)
	(molar) = (1/liter)
	(mM) =	(millimolar)
	FARADAY = (faraday) (coulomb)
	R = (k-mole) (joule/degC)
}


ASSIGNED {               : parameters needed to solve DE
	ica (mA/cm2)
:	iCa (mA/cm2)
        inf[2]
	tau[2]		(ms)
        v               (mV)
        celsius 	(degC)
	ecar    	(mV)      
	cai             (mM)      : initial internal Ca++ concentration
	cao             (mM)      : initial external Ca++ concentration
}


PARAMETER {              : parameters that can be entered when function is called in cell-setup
        gcabar = 0      (mho/cm2) : initialized conductance
}  

STATE {	
	m 
	h 
}            : unknown activation and inactivation parameters to be solved in the DEs  


INITIAL {
	rates(v)
        m = 0    : initial activation parameter value
	h = 1    : initial inactivation parameter value
}

BREAKPOINT {
	SOLVE states METHOD cnexp
	ecar = (1e3) * (R*(celsius+273.15))/(2*FARADAY) * log (cao/cai)
	ica = gcabar*m*m*m*h*(v - ecar)
:	iCa = gcabar*m*m*m*h*(v - ecar)

}


DERIVATIVE states {
	rates(v)
	m' = (inf[0]-m)/tau[0]
	h' = (inf[1]-h)/tau[1]
}

PROCEDURE rates(v(mV)) {LOCAL a, b :rest = -70
	FROM i=0 TO 1 {
		tau[i] = vartau(v,i)
		inf[i] = varss(v,i)
	}
}




FUNCTION varss(v(mV), i) {
	if (i==0) {
	   : varss = 1 / (1 + exp((v+48.5)/(-3(mV)))) : Ca activation original
	   varss = 1 / (1 + exp((v+43.5)/(-3(mV)))) : Ca activation original
	}
	else if (i==1) {
            :varss = 1/ (1 + exp((v+53)/(1(mV))))    : Ca inactivation original
	     varss = 1/ (1 + exp((v+50)/(1(mV))))    : Ca inactivation original
	}
}

FUNCTION vartau(v(mV), i) (ms){
	if (i==0) {
:       vartau = 50(ms)  : activation variable time constant
:       vartau = 70(ms)  : activation variable time constant, last used
	vartau = 8(ms)  : activation variable time constant, oct 18 for better vclamp

        }
	
	else if (i==1) {
:      	vartau = 5(ms)   : inactivation variable time constant
:      	vartau = 20(ms)   : inactivation variable time constant, last used
	vartau = 1(ms)   : inactivation variable time constat, oct18 for better vclamp
       }
	
}	















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