Calcium influx during striatal upstates (Evans et al. 2013)

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Accession:150912
"... To investigate the mechanisms that underlie the relationship between calcium and AP timing, we have developed a realistic biophysical model of a medium spiny neuron (MSN). ... Using this model, we found that either the slow inactivation of dendritic sodium channels (NaSI) or the calcium inactivation of voltage-gated calcium channels (CDI) can cause high calcium corresponding to early APs and lower calcium corresponding to later APs. We found that only CDI can account for the experimental observation that sensitivity to AP timing is dependent on NMDA receptors. Additional simulations demonstrated a mechanism by which MSNs can dynamically modulate their sensitivity to AP timing and show that sensitivity to specifically timed pre- and postsynaptic pairings (as in spike timing-dependent plasticity protocols) is altered by the timing of the pairing within the upstate. …"
Reference:
1 . Evans RC, Maniar YM, Blackwell KT (2013) Dynamic modulation of spike timing-dependent calcium influx during corticostriatal upstates. J Neurophysiol 110:1631-45 [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: Striatum;
Cell Type(s): Neostriatum medium spiny direct pathway GABA cell;
Channel(s): I Na,t; I L high threshold; I N; I A; I K; I K,Ca; I A, slow; I Krp; I R;
Gap Junctions:
Receptor(s): AMPA; NMDA; Gaba;
Gene(s): Cav1.3 CACNA1D; Cav1.2 CACNA1C; Cav2.2 CACNA1B;
Transmitter(s):
Simulation Environment: GENESIS;
Model Concept(s): Oscillations; STDP; Calcium dynamics;
Implementer(s): Evans, Rebekah [Rebekah.Evans at nih.gov];
Search NeuronDB for information about:  Neostriatum medium spiny direct pathway GABA cell; AMPA; NMDA; Gaba; I Na,t; I L high threshold; I N; I A; I K; I K,Ca; I A, slow; I Krp; I R; 
Starting Genesis
Executable:         /home/neuroware/chemesis2.3//chemesis
The kinetics library is copylefted under the LGPL, see kinetics/COPYRIGHT.

Startup script:     /home/rebekah/.simrc
SIMPATH=. /home/neuroware/genesis-2.3/genesis/startup /home/neuroware/genesis-2.3/genesis/Scripts/neurokit /home/neuroware/genesis-2.3/genesis/Scripts/neurokit/prototypes
SIMPATH=. /home/neuroware/genesis-2.3/genesis/startup /home/neuroware/genesis-2.3/genesis/Scripts/neurokit /home/neuroware/genesis-2.3/genesis/Scripts/neurokit/prototypes /home/neuroware/genesis-2.3/genesis/Scripts/X1compat
SIMNOTES=/home/rebekah/.notes
GENESIS_HELP=/home/neuroware/genesis-2.3/genesis/Doc
Simulation Script:  MSsimSyn3.g
changing clock [0] from 1 to 5e-06
/cell
COMPARTMENT DID NOT EXIST PRIOR TO CALL TO:
make_cylind_compartment
Make naF, qfactor= 1
Make naF, qfactor= 1
make kA, qfactor= 3
CaL12 increment: 5e-05 V
CDIincrement: 1.666666667e-06
CaL13 increment: 5e-05 V
CDIincrement: 1.666666667e-06
CaN increment: 5e-05 V
CDIincrement: 1.666666667e-06
CaR increment: 5e-05 V
CDIincrement: 1.666666667e-06
CaT increment: 5e-05 V
delta=, 2e-06
MScell/MScelltapershortCM3noproto.p read: 189 compartments, 0 channels, 0 shells, 1 others
time = 0.000000 ; step = 0          
soma=8.5e-07
soma=1.229591527
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/cell/soma shell_vol= 7.99220492e-17 + 1.599999996e-05
shell_dia=1.579999996e-05
dia= 1.599999996e-05
surface area= 8.04247036e-10
/cell/soma shell_vol= 7.99220492e-17 + 1.599999996e-05
shell_dia=1.579999996e-05
dia= 1.599999996e-05
surface area= 8.04247036e-10
/cell/soma shell_vol= 7.99220492e-17 + 1.599999996e-05
shell_dia=1.579999996e-05
dia= 1.599999996e-05
surface area= 8.04247036e-10
/cell/soma shell_vol= 7.99220492e-17 + 1.599999996e-05
shell_dia=1.579999996e-05
dia= 1.599999996e-05
surface area= 8.04247036e-10
finished adding calcium
add VGCC
add KCa
XXXXXXXXXXXXXXX make_NMDA_channel XXXXXXXXXXXXXXXX
chanpath = NR2A
caBuffer = 0
KMg = 18
tau2 = 0.05625
gmax = 4.7e-10
XXXXXXXXXXXXXXX make_NMDA_channel XXXXXXXXXXXXXXXX
time = 0.000000 ; step = 0          
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Syn3NaFdR34noAPgradspke4ra.txt
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Syn3NaFdR345APgradspke4ra.txt
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Syn3NaFdR3410APgradspke4ra.txt
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Syn3NaFdR3420APgradspke4ra.txt
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Syn3NaFdR3430APgradspke4ra.txt
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Syn3NaFdR3450APgradspke4ra.txt
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Syn3NaFdR34100APgradspke4ra.txt
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Syn3NaFdR34175APgradspke4ra.txt
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time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
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time = 0.000000 ; step = 0          
time = 0.050005 ; step = 10001          
completed 10001 steps in 33.217950 cpu seconds
time = 0.060005 ; step = 12001          
completed 2000 steps in 7.152913 cpu seconds
time = 0.225010 ; step = 45002          
completed 33001 steps in 117.141191 cpu seconds
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completed 1000 steps in 3.699438 cpu seconds
time = 0.260015 ; step = 52003          
completed 6001 steps in 21.540725 cpu seconds
time = 0.350020 ; step = 70004          
completed 18001 steps in 64.195241 cpu seconds
time = 0.550020 ; step = 110004          
completed 40000 steps in 133.843653 cpu seconds
<RebekahSims/add_outputPools.g> line 4
... <RebekahSims/US290grad.g> line 7
... <MSsimSyn3.g> line 69
* Warning - overwriting an existing element '/output/plot_out'
Syn3NaFdR34290APgradspke4ra.txt
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.000000 ; step = 0          
time = 0.050005 ; step = 10001          
completed 10001 steps in 33.947839 cpu seconds
time = 0.060005 ; step = 12001          
completed 2000 steps in 7.372879 cpu seconds
time = 0.260010 ; step = 52002          
completed 40001 steps in 140.993566 cpu seconds
time = 0.340015 ; step = 68003          
completed 16001 steps in 58.806060 cpu seconds
time = 0.345015 ; step = 69003          
completed 1000 steps in 3.810421 cpu seconds
time = 0.350015 ; step = 70003          
completed 1000 steps in 3.751429 cpu seconds
time = 0.550020 ; step = 110004          
completed 40001 steps in 140.052708 cpu seconds

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