Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)

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Accession:169457
Python scripts for running NEURON simulations that model a layer V pyramidal cell with certain genetic variants implemented. The genes included are obtained from genome-wide association studies of schizophrenia.
Reference:
1 . Mäki-Marttunen T, Halnes G, Devor A, Witoelar A, Bettella F, Djurovic S, Wang Y, Einevoll GT, Andreassen OA, Dale AM (2016) Functional Effects of Schizophrenia-Linked Genetic Variants on Intrinsic Single-Neuron Excitability: A Modeling Study. Biol Psychiatry Cogn Neurosci Neuroimaging 1:49-59 [PubMed]
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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:
Cell Type(s): Neocortex L5/6 pyramidal GLU cell;
Channel(s): I Na,p; I Na,t; I L high threshold; I T low threshold; I K; I K,leak; I M; I h; I K,Ca; I A, slow; Ca pump;
Gap Junctions:
Receptor(s):
Gene(s): Nav1.1 SCN1A; Nav1.7 SCN9A; Cav3.3 CACNA1I; Cav1.3 CACNA1D; Cav1.2 CACNA1C; Kv2.1 KCNB1; HCN1;
Transmitter(s):
Simulation Environment: NEURON; Python;
Model Concept(s): Coincidence Detection; Active Dendrites; Detailed Neuronal Models; Schizophrenia;
Implementer(s): Maki-Marttunen, Tuomo [tuomomm at uio.no];
Search NeuronDB for information about:  Neocortex L5/6 pyramidal GLU cell; I Na,p; I Na,t; I L high threshold; I T low threshold; I K; I K,leak; I M; I h; I K,Ca; I A, slow; Ca pump;
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Maki-MarttunenEtAl2015
models
morphologies
readme.txt
Ca_HVA.mod *
Ca_LVAst.mod *
CaDynamics_E2.mod *
epsp.mod *
Ih.mod *
Im.mod *
K_Pst.mod *
K_Tst.mod *
Nap_Et2.mod
NaTa_t.mod
NaTs2_t.mod
SK_E2.mod *
SKv3_1.mod *
collectscalings.py
collectthresholddistalamps.py
drawfig1.py
drawfig2.py
drawfig3.py
drawfig4.py
drawfig5.py
findthresholddistalamps.py
mutation_stuff.py
mytools.py
runcontrols.py
savesynapselocations.py
scalemutations.py
scalings.sav
                            
: Dynamics that track inside calcium concentration
: modified from Destexhe et al. 1994

NEURON	{
	SUFFIX CaDynamics_E2
	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)}

STATE	{
	cai (mM)
	}

BREAKPOINT	{ SOLVE states METHOD cnexp }

DERIVATIVE states	{
	cai' = -(10000.0)*(ica*gamma/(2*FARADAY*depth)) - (cai - minCai)/decay
}