Persistent synchronized bursting activity in cortical tissues (Golomb et al 2005)

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Accession:57905
The program simulates a one-dimensional model of a cortical tissue with excitatory and inhibitory populations.
Reference:
1 . Golomb D, Shedmi A, Curtu R, Ermentrout GB (2006) Persistent synchronized bursting activity in cortical tissues with low magnesium concentration: a modeling study. J Neurophysiol 95:1049-67 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Neocortex;
Cell Type(s): Neocortex V1 L6 pyramidal corticothalamic GLU cell; Abstract Wang-Buzsaki neuron;
Channel(s): I Na,p; I Na,t; I K; I K,leak; I M;
Gap Junctions:
Receptor(s): GabaA; AMPA; NMDA;
Gene(s):
Transmitter(s): Gaba; Glutamate;
Simulation Environment: C or C++ program;
Model Concept(s): Bursting; Oscillations; Synchronization; Epilepsy;
Implementer(s): Golomb, David [golomb at bgu.ac.il];
Search NeuronDB for information about:  Neocortex V1 L6 pyramidal corticothalamic GLU cell; GabaA; AMPA; NMDA; I Na,p; I Na,t; I K; I K,leak; I M; Gaba; Glutamate;
scan=n
seed=7891
E_CELL: GY model
gNa=35.0 gNaP=0.2 gKdr=6.0 gA=0.0 gZ=1.8 gL=0.05
n_Iapp=2 nin_Iapp_a=16 nt_Iapp=500 Iapp=0.0 0.0 Iapp_a=4.0 0.0
Cm=1.0 VNa=55.0 VK=-90.0 VL=-70.0 phi=10.0
thetam=-30.0 sigmam=9.5 thetap=-47.0 sigmap=3.0
thetah=-45.0 sigmah=-7.0 thetan=-33.0 sigman=10.0
thetaa=-50.0 sigmaa=20.0 thetab=-80.0 sigmab=-6.0 tauB=15.0
thetaz=-39.0 sigmaz=5.0 tauZ=75.0
non=1024 rho=32.0 Vinc1=-70.0 Vinc2=-70.0
I CELL: WB model
gNa=35.0 gKdr=9.0 gL=0.1
n_Iapp=2 nin_Iapp_a=16 nt_Iapp=500 Iapp=0.0 0.0 Iapp_a=4.0 0.0
Cm=1.0 VNa=55.0 VK=-90.0 VL=-65.0 phi=5.0
non=1024 rho=32.0 Vinc1=-70.0 Vinc2=-70.0
SYNAPSE
geometry=o fshape=e concur=n
Glu: kt=0.0 kv=0.001 Vrev=0.0
AMPA: ths=-20.0 sigs=2.0 kf=1.0 tAMPA=5.0 ivar=2
NMDA: kx=1.0 tsrNMDA=14.286 kf=1.0 tsdNMDA=100.0 ivar=4
ths=-20.0 sigs=2.0 thetanp=-50.0 sigmanp=12.5 zeromag=y
GABAA: ths=-20.0 sigs=2.0 kt=0.0 kv=0.001 kf=1.0 kr=0.1 Vrev=-70.0
EE: gAMPA=0.08 gNMDA=0.07 Min=2.0 sig=1.0
IE: gGABAA=0.05 Min=2.0 sig=0.5
EI: gAMPA=0.2 gNMDA=0.05 Min=2.0 sig=1.0 Nalpha=n alpha=0.25
II: gGABAA=0.0 Min=2.0 sig=0.5 gel=0.0 Mel=2.0
GENERAL
deltat=0.01 nt=200000
E: nwrite=1 nwritear=512
I: nwrite=1 nwritear=512
twrite=10 tmcol=5000000 tmtrj=100000 imtrj=512 tchi=200000 traster=1000000
chirange=1.0
method=r incond=b smforce=l firestop=n
anburp=y Ttransient=1000.0 tolerance=0.2 delta=0.5 mapval=3
Istart=0.0 Iend=0.0 nI=1 difstart=n
gNstart=0.1 tsdNstart=100.0 gAstart=0.21 gNaPstart=0.08

INITIAL CONDITIONS
E
V     h     n     b     z     T     sP     xN     sN 
-70.0 0.8   0.2   0.15  0.1   1.0   0.8    0.0    0.9
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
I
V     h     n1    n3    x     s
-64.0 0.95  0.25  0.2   1.0   0.0
-62.0 0.85  0.25  0.2   1.0   0.0


scan      : n - no, e - equal spacing, u - unequal spacing,
            example: SYNAPSE IE:gGABAA
            f - find borders, p - find borders considering initial conditions.
zeromag   : y - zero [Mg], n - no.
geometry  : a - all-to-all, s - sparse, o - 1-d.
fshape    : e - exp, s - step, g- Gaussian.
concur    : n - conductance, r - current.
method    : r - Runge-Kutta 4, t - Runge-Kutta 2, e - Euler,
            o - Runge-Kutta 4 with interaction calculated once,
            w - Runge-Kutta 2 with interaction calculated once,
incond    : t - from Vin - soma, aux=aux(V), s - from Vin - soma, aux=0,
            n - from Vin, soma+dendrite, r - read.
            a - random V, axu 0, b - random V, aux=aux(V).
smforce   : p - always print (sm=0), n - always no print (sm=1), 
            l - leave as is.
firestop  : y - stop when edge cells fire, n - no.
anburp    : y - analyze bursting pattern, n - do not analyze.
mapval    : 1 - spike_num, 2 - n_spk_in_bur, 3 - n_spk_in_bur_a.
difstart  : y - start with different parameters, n - use the original
            parameters.

-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0
-70.0 0.8   0.2   0.15  0.1   1.0   0.0    0.0    0.0

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