A single column thalamocortical network model (Traub et al 2005)

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Accession:45539
To better understand population phenomena in thalamocortical neuronal ensembles, we have constructed a preliminary network model with 3,560 multicompartment neurons (containing soma, branching dendrites, and a portion of axon). Types of neurons included superficial pyramids (with regular spiking [RS] and fast rhythmic bursting [FRB] firing behaviors); RS spiny stellates; fast spiking (FS) interneurons, with basket-type and axoaxonic types of connectivity, and located in superficial and deep cortical layers; low threshold spiking (LTS) interneurons, that contacted principal cell dendrites; deep pyramids, that could have RS or intrinsic bursting (IB) firing behaviors, and endowed either with non-tufted apical dendrites or with long tufted apical dendrites; thalamocortical relay (TCR) cells; and nucleus reticularis (nRT) cells. To the extent possible, both electrophysiology and synaptic connectivity were based on published data, although many arbitrary choices were necessary.
Reference:
1 . Traub RD, Contreras D, Cunningham MO, Murray H, LeBeau FE, Roopun A, Bibbig A, Wilent WB, Higley MJ, Whittington MA (2005) Single-column thalamocortical network model exhibiting gamma oscillations, sleep spindles, and epileptogenic bursts. J Neurophysiol 93:2194-232 [PubMed]
2 . Traub RD, Contreras D, Whittington MA (2005) Combined experimental/simulation studies of cellular and network mechanisms of epileptogenesis in vitro and in vivo. J Clin Neurophysiol 22:330-42 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Neocortex; Thalamus;
Cell Type(s): Thalamus geniculate nucleus/lateral principal GLU cell; Thalamus reticular nucleus GABA cell; Neocortex U1 L6 pyramidal corticalthalamic GLU cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex fast spiking (FS) interneuron; Neocortex spiking regular (RS) neuron; Neocortex spiking low threshold (LTS) neuron;
Channel(s): I Na,p; I Na,t; I L high threshold; I T low threshold; I A; I K; I M; I h; I K,Ca; I Calcium; I A, slow;
Gap Junctions: Gap junctions;
Receptor(s): GabaA; AMPA; NMDA;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON; FORTRAN;
Model Concept(s): Activity Patterns; Bursting; Temporal Pattern Generation; Oscillations; Simplified Models; Epilepsy; Sleep; Spindles;
Implementer(s): Traub, Roger D [rtraub at us.ibm.com];
Search NeuronDB for information about:  Thalamus geniculate nucleus/lateral principal GLU cell; Thalamus reticular nucleus GABA cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex U1 L6 pyramidal corticalthalamic GLU cell; GabaA; AMPA; NMDA; I Na,p; I Na,t; I L high threshold; I T low threshold; I A; I K; I M; I h; I K,Ca; I Calcium; I A, slow;
Files displayed below are from the implementation
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nrntraub
mod
alphasyndiffeq.mod *
alphasynkin.mod *
alphasynkint.mod *
ampa.mod *
ar.mod *
cad.mod *
cal.mod *
cat.mod *
cat_a.mod *
gabaa.mod *
iclamp_const.mod *
k2.mod *
ka.mod *
ka_ib.mod *
kahp.mod *
kahp_deeppyr.mod *
kahp_slower.mod *
kc.mod *
kc_fast.mod *
kdr.mod *
kdr_fs.mod *
km.mod *
naf.mod *
naf_tcr.mod *
naf2.mod *
nap.mod *
napf.mod *
napf_spinstell.mod *
napf_tcr.mod *
par_ggap.mod *
pulsesyn.mod *
rampsyn.mod *
ri.mod *
traub_nmda.mod *
                            
TITLE Calcium low threshold T type current version a for RD Traub 2005

COMMENT
	This current is found in the model deepLTS cells
	Traub made this model modifying Huguenard and Prince 1992 as
	appeared on Destexhe et al 1996 (in vivo in vitro ...)
	Modification by Tom Morse for Traub et al 2005
	modified from
	Implementation by Maciej Lazarewicz 2003 (mlazarew@seas.upenn.edu)
	RD Traub, J Neurophysiol 89:909-921, 2003
ENDCOMMENT

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

UNITS { 
	(mV) = (millivolt) 
	(mA) = (milliamp) 
}
 
NEURON { 
	SUFFIX cat_a
	NONSPECIFIC_CURRENT i   : not causing [Ca2+] influx
	RANGE gbar, i, m, h, alphah, betah 	: m,h, alphah, betah for comparison with FORTRAN
}

PARAMETER { 
	gbar = 0.0 	(mho/cm2)
	v 		(mV)  
}
 
ASSIGNED { 
	i 		(mA/cm2) 
	minf hinf 	(1)
	mtau (ms) htau 	(ms) 
	alphah (/ms) betah	(/ms)
}
 
STATE {
	m h
}

BREAKPOINT { 
	SOLVE states METHOD cnexp 
	i = gbar * m * m * h * ( v - 125 ) 
	alphah = hinf/htau
	betah = 1/htau - alphah
}
 
INITIAL { 
	settables(v) 
:	m  = minf
	h  = hinf
	m  = 0
} 

DERIVATIVE states { 
	settables(v) 
	m' = ( minf - m ) / mtau 
	h' = ( hinf - h ) / htau
}

UNITSOFF 

PROCEDURE settables(v(mV)) { 
	TABLE minf, mtau,hinf, htau FROM -120 TO 40 WITH 641
        minf  = 1 / ( 1 + exp( ( -v - 52 ) / 7.4 ) )
        mtau  = 1 + .33 / ( exp( ( v + 27.0 ) / 10.0 ) + exp( ( - v - 102 ) / 15.0 ) )

        hinf  = 1 / ( 1 + exp( ( v + 80 ) / 5 ) )
        htau = 28.30 +.33 / (exp(( v + 48.0)/ 4.0) + exp( ( -v - 407.0) / 50.0 ) )

}

UNITSON