Allen Institute: Nr5a1-Cre VISp layer 4 329322394

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Accession:184148
This is an Allen Cell Types Database model of a Nr5a1-Cre neuron from layer 4 of the mouse primary visual cortex. The model was based on a traced morphology after filling the cell with biocytin and optimized using experimental electrophysiology data recorded from the same cell. The electrophysiology data was collected in a highly standardized way to facilitate comparison across all cells in the database. The model was optimized by a genetic algorithm that adjusted the densities of conductances placed at the soma to match experimentally-measured features of action potential firing. Data and models from the Allen Cell Types Database are made available to the community under the Allen Institute's Terms of Use and Citation Policy.
Reference:
1 . Allen Institute (2015) Documentation Allen Cell Types Database
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): Neocortex layer 4 pyramidal cell;
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;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON; Python;
Model Concept(s): Parameter Fitting; Calcium dynamics; Vision;
Implementer(s):
Search NeuronDB for information about:  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;
Files displayed below are from the implementation
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329322394
modfiles
Ca_HVA.mod *
Ca_LVA.mod *
CaDynamics.mod *
Ih.mod *
Im.mod *
Im_v2.mod *
K_P.mod *
K_T.mod *
Kd.mod *
Kv2like.mod *
Kv3_1.mod *
Nap.mod *
NaTa.mod *
NaTs.mod *
NaV.mod *
SK.mod *
                            
: Dynamics that track inside calcium concentration
: modified from Destexhe et al. 1994

NEURON	{
	SUFFIX CaDynamics
	USEION ca READ ica WRITE cai
	RANGE decay, gamma, minCai, depth
}

UNITS	{
	(mV) = (millivolt)
	(mA) = (milliamp)
	FARADAY = (faraday) (coulombs)
	(molar) = (1/liter)
	(mM) = (millimolar)
	(um)	= (micron)
}

PARAMETER	{
	gamma = 0.05 : percent of free calcium (not buffered)
	decay = 80 (ms) : rate of removal of calcium
	depth = 0.1 (um) : depth of shell
	minCai = 1e-4 (mM)
}

ASSIGNED	{ica (mA/cm2)}

INITIAL {
	cai = minCai
}

STATE	{
	cai (mM)
}

BREAKPOINT	{ SOLVE states METHOD cnexp }

DERIVATIVE states	{
	cai' = -(10000)*(ica*gamma/(2*FARADAY*depth)) - (cai - minCai)/decay
}

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