In silico hippocampal modeling for multi-target pharmacotherapy in schizophrenia (Sherif et al 2020)

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Accession:258738
"Using a hippocampal CA3 computer model with 1200 neurons, we examined the effects of alterations in NMDAR, HCN (Ih current), and GABAAR on information flow (measured with normalized transfer entropy), and in gamma activity in local field potential (LFP). We found that altering NMDARs, GABAAR, Ih, individually or in combination, modified information flow in an inverted-U shape manner, with information flow reduced at low and high levels of these parameters. Theta-gamma phase-amplitude coupling also had an inverted-U shape relationship with NMDAR augmentation. The strong information flow was associated with an intermediate level of synchrony, seen as an intermediate level of gamma activity in the LFP, and an intermediate level of pyramidal cell excitability"
Reference:
1 . Sherif MA, Neymotin SA, Lytton WW (2020) In silico hippocampal modeling for multi-target pharmacotherapy in schizophrenia. NPJ Schizophr 6:25 [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: Hippocampus;
Cell Type(s): Hippocampus CA3 pyramidal GLU cell; Hippocampus CA3 interneuron basket GABA cell; Hippocampus CA3 stratum oriens lacunosum-moleculare interneuron;
Channel(s): I h;
Gap Junctions:
Receptor(s): AMPA; NMDA;
Gene(s): NR2A GRIN2A;
Transmitter(s): Glutamate; Gaba;
Simulation Environment: NEURON;
Model Concept(s): Schizophrenia;
Implementer(s): Sherif, Mohamed [mohamed.sherif.md at gmail.com];
Search NeuronDB for information about:  Hippocampus CA3 pyramidal GLU cell; Hippocampus CA3 interneuron basket GABA cell; AMPA; NMDA; I h; Gaba; Glutamate;
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CA3modelCode_npjSchizophrenia_September2020--main
data
README.md
CA1ih.mod
CA1ika.mod *
CA1ikdr.mod *
CA1ina.mod *
cagk.mod *
caolmw.mod *
capr.mod *
expsynstdp.mod
Gfluctp.mod *
HCN1.mod *
HCN2.mod
IA.mod
icaolmw.mod *
icapr.mod *
iholmkop.mod *
iholmw.mod *
ihpyrkop.mod *
ihstatic.mod *
infot.mod *
kahppr.mod *
kaolmkop.mod *
kapyrkop.mod *
kcaolmw.mod *
kcpr.mod *
kdrbwb.mod *
kdrolmkop.mod *
kdrpr.mod *
kdrpyrkop.mod *
km.mod
misc.mod *
MyExp2Syn.mod *
MyExp2SynAlpha.mod *
MyExp2SynBB.mod *
MyExp2SynNMDA.mod *
MyExp2SynNMDABB.mod *
nafbwb.mod *
nafolmkop.mod *
nafpr.mod *
nafpyrkop.mod *
samnutils.mod
sampen.mod
stats.mod
updown.mod *
vecst.mod *
wrap.mod *
analysisPlottingCode.py
aux_fun.inc *
batch.py
conf.py
declist.hoc *
decmat.hoc *
decnqs.hoc *
decvec.hoc *
default.hoc *
drline.hoc *
fig1sample.png
fig1simulationConfig.cfg
geom.py
grvec.hoc *
init.hoc
labels.hoc *
local.hoc *
misc.h
network.py
nqs.hoc *
nqs_utils.hoc *
nrnoc.hoc *
params.py
psd.py
pyinit.py
pywrap.hoc *
run.py
runone.py
simctrl.hoc *
stats.hoc *
syncode.hoc *
updown.hoc
xgetargs.hoc *
                            
COMMENT
IA channel

Reference:

1.	Zhang, L. and McBain, J. Voltage-gated potassium currents in
	stratum oriens-alveus inhibitory neurons of the rat CA1
	hippocampus, J. Physiol. 488.3:647-660, 1995.

		Activation V1/2 = -14 mV
		slope = 16.6
		activation t = 5 ms
		Inactivation V1/2 = -71 mV
		slope = 7.3
		inactivation t = 15 ms
		recovery from inactivation = 142 ms

2.	Martina, M. et al. Functional and Molecular Differences between
	Voltage-gated K+ channels of fast-spiking interneurons and pyramidal
	neurons of rat hippocampus, J. Neurosci. 18(20):8111-8125, 1998.	
	(only the gkAbar is from this paper)

		gkabar = 0.0175 mho/cm2
		Activation V1/2 = -6.2 +/- 3.3 mV
		slope = 23.0 +/- 0.7 mV
		Inactivation V1/2 = -75.5 +/- 2.5 mV
		slope = 8.5 +/- 0.8 mV
		recovery from inactivation t = 165 +/- 49 ms  

3.	Warman, E.N. et al.  Reconstruction of Hippocampal CA1 pyramidal
	cell electrophysiology by computer simulation, J. Neurophysiol.
	71(6):2033-2045, 1994.

		gkabar = 0.01 mho/cm2
		(number taken from the work by Numann et al. in guinea pig
		CA1 neurons)

File was downloaded from modeldb accession number: 123815
File was modified so that rates() gets called everytime breakpoint is called - table is not used
File was modified to allow for simulations to run at different temperatures other than those used to obtain data (Q10 and qTEMP were implemented to tau_a and tau_b) by Mohamed Sherif, MD, March 16, 2015
Q10 = 3
Q10TEMP = 24 (degC)

ENDCOMMENT

UNITS {
        (mA) = (milliamp)
        (mV) = (millivolt)
}
 
NEURON {
        SUFFIX IA
        USEION k READ ek WRITE ik
        RANGE gkAbar,ik, tau_a, tau_b, tau_b_tempInsensitive
        RANGE ainf, binf, aexp, bexp
        GLOBAL qt
}
 
PARAMETER {
        v (mV)
        dt (ms)
        gkAbar = 0.0165 (mho/cm2)	:from Martina et al.
        ek = -90 (mV)
	tau_a_tempInsensitive = 5 (ms)
        Q10 = 3
        Q10TEMP = 24 (degC)
}
 
STATE {
        a b
}
 
ASSIGNED {
        ik (mA/cm2)
	ainf binf aexp bexp
	tau_b tau_a
        tau_b_tempInsensitive
        celsius (degC)
        qt (1)
}
 
BREAKPOINT {
        SOLVE deriv METHOD cnexp
        ik = gkAbar*a*b*(v - ek)
}
 
INITIAL {
        qt = Q10 ^ ((celsius - Q10TEMP) / 10)
        rates(v)
	a = ainf
	b = binf
}

DERIVATIVE deriv {  :Computes state variables m, h, and n rates(v)      
		: at the current v and dt.
        rates(v)
        a' = (ainf - a)/(tau_a)
        b' = (binf - b)/(tau_b)
}
 
PROCEDURE rates(v) {  :Computes rate and other constants at current v.
                      :Call once from HOC to initialize inf at resting v.
        LOCAL alpha_b, beta_b
	alpha_b = 0.000009/exp((v-26)/18.5)
	beta_b = 0.014/(exp((v +70)/(-11))+0.2)
        ainf = 1/(1 + exp(-(v + 14)/16.6))
        tau_a = tau_a_tempInsensitive / qt
        aexp = 1 - exp(-dt/(tau_a))
        tau_b_tempInsensitive = 1/(alpha_b + beta_b)
	tau_b = tau_b_tempInsensitive / qt
        binf = 1/(1 + exp((v + 71)/7.3))
        bexp = 1 - exp(-dt/(tau_b))
}
 
UNITSON