L5 pyr. cell spiking control by oscillatory inhibition in distal apical dendrites (Li et al 2013)

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Accession:150538
This model examined how distal oscillatory inhibition influences the firing of a biophysically-detailed layer 5 pyramidal neuron model.
Reference:
1 . Li X, Morita K, Robinson HP, Small M (2013) Control of layer 5 pyramidal cell spiking by oscillatory inhibition in the distal apical dendrites: a computational modelling study. J Neurophysiol 109(11):2739-2756 [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: Neocortex;
Cell Type(s):
Channel(s): I K,Ca; I Na, leak;
Gap Junctions:
Receptor(s): AMPA;
Gene(s):
Transmitter(s): Dopamine;
Simulation Environment: NEURON; MATLAB;
Model Concept(s): Intrinsic plasticity;
Implementer(s): Moradi, Keivan [k.moradi at gmail.com]; Robinson, H.P.C. [hpcr at cam.ac.uk]; Small, Michael ; Li, Xiumin ;
Search NeuronDB for information about:  AMPA; I K,Ca; I Na, leak; Dopamine;
/
XiEtal2013
Codes for periodic inhibition
ReadMe.txt
cad2.mod
GABABsyn.mod
h.mod
kca.mod *
km.mod *
kv.mod *
na.mod *
NMDAr.mod
SlowCa.mod *
basal_soma_periodicgaba_stimulus.hoc
basal_soma_Poissongaba_stimulus.hoc
distal_distributed_periodic_gaba_stimulus.hoc
distal_distributed_periodic_gaba+gabab_stimulus.hoc
distal_distributed_Poisson_gaba_stimulus.hoc
distal_distributed_Poisson_GABAb_stimulus.hoc
j4a.hoc *
mainfile_stim_cyc.hoc
mosinit.hoc
                            
COMMENT
26 Ago 2002 Modification of original channel to allow variable time step and to correct an initialization error.
    Done by Michael Hines(michael.hines@yale.e) and Ruggero Scorcioni(rscorcio@gmu.edu) at EU Advance Course in Computational Neuroscience. Obidos, Portugal


na.mod

Sodium channel, Hodgkin-Huxley style kinetics.  

Kinetics were fit to data from Huguenard et al. (1988) and Hamill et
al. (1991)

qi is not well constrained by the data, since there are no points
between -80 and -55.  So this was fixed at 5 while the thi1,thi2,Rg,Rd
were optimized using a simplex least square proc

voltage dependencies are shifted approximately from the best
fit to give higher threshold

Author: Zach Mainen, Salk Institute, 1994, zach@salk.edu

ENDCOMMENT

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

NEURON {
	SUFFIX na
	USEION na READ ena WRITE ina
	RANGE m, h, gna, gbar
	GLOBAL tha, thi1, thi2, qa, qi, qinf, thinf
	RANGE minf, hinf, mtau, htau
	GLOBAL Ra, Rb, Rd, Rg
	GLOBAL q10, temp, tadj, vmin, vmax, vshift
}

PARAMETER {
	gbar = 1000   	(pS/um2)	: 0.12 mho/cm2
	vshift = -10	(mV)		: voltage shift (affects all)
								
	tha  = -35	(mV)		: v 1/2 for act		(-42)
	qa   = 9	(mV)		: act slope		
	Ra   = 0.182	(/ms)		: open (v)		
	Rb   = 0.124	(/ms)		: close (v)		

	thi1  = -50	(mV)		: v 1/2 for inact 	
	thi2  = -75	(mV)		: v 1/2 for inact 	
	qi   = 5	(mV)	        : inact tau slope
	thinf  = -65	(mV)		: inact inf slope	
	qinf  = 6.2	(mV)		: inact inf slope
	Rg   = 0.0091	(/ms)		: inact (v)	
	Rd   = 0.024	(/ms)		: inact recov (v) 

	temp = 23	(degC)		: original temp 
	q10  = 2.3			: temperature sensitivity

	v 		(mV)
	dt		(ms)
	celsius		(degC)
	vmin = -120	(mV)
	vmax = 100	(mV)
}


UNITS {
	(mA) = (milliamp)
	(mV) = (millivolt)
	(pS) = (picosiemens)
	(um) = (micron)
} 

ASSIGNED {
	ina 		(mA/cm2)
	gna		(pS/um2)
	ena		(mV)
	minf 		hinf
	mtau (ms)	htau (ms)
	tadj
}
 

STATE { m h }

INITIAL { 
	trates(v+vshift)
	m = minf
	h = hinf
}

BREAKPOINT {
        SOLVE states METHOD cnexp
        gna = tadj*gbar*m*m*m*h
	ina = (1e-4) * gna * (v - ena)
} 

LOCAL mexp, hexp 

DERIVATIVE states {   :Computes state variables m, h, and n 
        trates(v+vshift)      :             at the current v and dt.
        m' =  (minf-m)/mtau
        h' =  (hinf-h)/htau
}

PROCEDURE trates(v) {  
                      
        
        TABLE minf,  hinf, mtau, htau
	DEPEND  celsius, temp, Ra, Rb, Rd, Rg, tha, thi1, thi2, qa, qi, qinf
	
	FROM vmin TO vmax WITH 199

	rates(v): not consistently executed from here if usetable == 1

:        tinc = -dt * tadj

:        mexp = 1 - exp(tinc/mtau)
:        hexp = 1 - exp(tinc/htau)
}


PROCEDURE rates(vm) {  
        LOCAL  a, b

	a = trap0(vm,tha,Ra,qa)
	b = trap0(-vm,-tha,Rb,qa)

        tadj = q10^((celsius - temp)/10)

	mtau = 1/tadj/(a+b)
	minf = a/(a+b)

		:"h" inactivation 

	a = trap0(vm,thi1,Rd,qi)
	b = trap0(-vm,-thi2,Rg,qi)
	htau = 1/tadj/(a+b)
	hinf = 1/(1+exp((vm-thinf)/qinf))
}


FUNCTION trap0(v,th,a,q) {
	if (fabs(v/th) > 1e-6) {
	        trap0 = a * (v - th) / (1 - exp(-(v - th)/q))
	} else {
	        trap0 = a * q
 	}
}	





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