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 decay of internal calcium concentration
:
: Internal calcium concentration due to calcium currents and pump.
: Differential equations.
:
: Simple model of ATPase pump with 3 kinetic constants (Destexhe 92)
:     Cai + P <-> CaP -> Cao + P  (k1,k2,k3)
: A Michaelis-Menten approximation is assumed, which reduces the complexity
: of the system to 2 parameters: 
:       kt = <tot enzyme concentration> * k3  -> TIME CONSTANT OF THE PUMP
:	kd = k2/k1 (dissociation constant)    -> EQUILIBRIUM CALCIUM VALUE
: The values of these parameters are chosen assuming a high affinity of 
: the pump to calcium and a low transport capacity (cfr. Blaustein, 
: TINS, 11: 438, 1988, and references therein).  
:
: Units checked using "modlunit" -> factor 10000 needed in ca entry
:
: VERSION OF PUMP + DECAY (decay can be viewed as simplified buffering)
:
: All variables are range variables
:
:
: This mechanism was published in:  Destexhe, A. Babloyantz, A. and 
: Sejnowski, TJ.  Ionic mechanisms for intrinsic slow oscillations in
: thalamic relay neurons. Biophys. J. 65: 1538-1552, 1993)
:
: Written by Alain Destexhe, Salk Institute, Nov 12, 1992
:
: This file was modified by Yiota Poirazi (poirazi@LNC.usc.edu) on April 18, 2001 to account for the sharp
: Ca++ spike repolarization observed in: Golding, N. Jung H-Y., Mickus T. and Spruston N
: "Dendritic Calcium Spike Initiation and Repolarization are controlled by distinct potassium channel
: subtypes in CA1 pyramidal neurons". J. of Neuroscience 19(20) 8789-8798, 1999.
:
:  factor 10000 is replaced by 10000/18 needed in ca entry
:  taur --rate of calcium removal-- is replaced by taur*7 (7 times faster) 


INDEPENDENT {t FROM 0 TO 1 WITH 1 (ms)}

NEURON {
	SUFFIX cad
	USEION ca READ ica, cai WRITE cai	
        RANGE ca
	GLOBAL depth,cainf,taur
}

UNITS {
	(molar) = (1/liter)			: moles do not appear in units
	(mM)	= (millimolar)
	(um)	= (micron)
	(mA)	= (milliamp)
	(msM)	= (ms mM)
	FARADAY = (faraday) (coulomb)
}


PARAMETER {
	depth	= .1	(um)		: depth of shell
	:taur	= 200	(ms)		: rate of calcium removal
	taur =  100 (ms)		: rate of calcium removal for stress conditions
	cainf	= 100e-6(mM)
	cai		(mM)
}

STATE {
	ca		(mM) 
}

INITIAL {
	ca = cainf
}

ASSIGNED {
	ica		(mA/cm2)
	drive_channel	(mM/ms)
}
	
BREAKPOINT {
	SOLVE state METHOD euler
}

DERIVATIVE state { 

	drive_channel =  - (10000) * ica / (2 * FARADAY * depth)
	if (drive_channel <= 0.) { drive_channel = 0.  }   : cannot pump inward 
         
	:ca' = drive_channel + (cainf-ca)/taur
        ca' = drive_channel/18 + (cainf -ca)/taur*7   :70 :(7) : changed on jan16, 2008 kiki
	cai = ca
}








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