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]
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 *
                            
[seed]
iseed = 1234
wseed = 4321
pseed = 4321
signal_rseed = 7483

[chan]

[run]
tstop = 3000
dt = 0.1
saveout = 1
simstr = controlSimulation
statestr = notUsed
dorun = 1
verbose = 0
savesomavolt = 0
cvodeactive = 0
recdt = 10
recvdt = 1
binsz = 5
savestate = 0
loadstate = 0
loadtstop = 0
saveconn = 0
recordnetstiminputs = 0
savenetstiminputs = 0
recpyrinputspikes = 0
savepyrinputspikes = 0
recsignalspikes = 0
savesignalspikes = 0

[rxd]
userxd = 0
cadiffcoeff = 0
pv_frate = 5.0
pv_init = 0.2
useip3 = 1
gip3 = 120400.0
gserca = 4.0
gleak = 3.0
cacytinit = 100e-6
caerinit = 100e-6

[net]
connections = 1
scale = 0
includecckcs = 0
hcurrent_g_pv_scaling = 1.0
hcurrent_g_olm_scaling = 1.0
hcurrent_g_pyr_scaling = 1.0
hcurrent_g_cck_scaling = 1.0
cb1r_cck_somapyr_weight = 1.0
cb1r_cck_adend2pyr_weight = 1.0
cb1r_pyr_recurrent_weight = 1.0
cb1r_pyr_pv_weight = 1.0
cb1r_ms_weight = 1.0
cb1r_cck_adend3_weight = 1.0
cb1r_pyr_olm_weight = 1.0
olm_nmdarw_scaling = 1
pv_nmdarw_scaling = 1.0
pyr_nmdarw_scaling = 1.0
cck_soma_nmdarw_scaling = 1.0
cck_adend2_nmdarw_scaling = 1.0
cck_adend3_nmdarw_scaling = 1.0
olm_amparw_scaling = 1.0
pyrpop_cnum = 800
baspop_cnum = 200
olmpop_cnum = 200
cck_somapyrpop_cnum = 100
cck_adend2pyrpop_cnum = 100
cck_adend3pop_cnum = 0
pyr_pyr_location = mid-apical
olm_pyr_location = distal-apical
pyr_bas_conv = 100
pyr_olm_conv = 10
pyr_cck_somapyr_conv = 100
pyr_cck_adend2pyr_conv = 20
pyr_pyr_conv = 25
bas_bas_conv = 60
bas_pyr_conv = 50
cck_somapyr_pyr_conv = 50
cck_adend2pyr_pyr_conv = 50
cck_somapyr_bas_conv = 40
bas_cck_somapyr_conv = 20
cck_somapyr_cck_somapyr_conv = 30
bas_olm_conv = 1
olm_pyr_conv = 20
pyr_cck_adend3_conv = 10
cck_adend3_pyr_conv = 20
nmfracca = 0

[stim]
noise = 1
domakenoise = 1
usenetstim = 1
domakesignal = 0
pyrgabaw = 0
pyrgabaisi = 1
pyrampaw = 0.05e-3
pyrampaisi = 4
pyrnmdaw = 6.5e-3
pyrnmdaisi = 100
basampaw = 0
basampaisi = 1
basgabaw = 0
basgabaisi = 1
sgrhzee = 1000
sgrhzei = 0
sgrhzie = 250
sgrhzii = 0
sgrhzenm = 0
sgrhzinm = 0
e4rexgain = 0.5
sgrhzltsslowslowgaba = 0
exgain = 10.0
medialseptum_gain_olm = 1.0
medialseptum_gain_pv = 1.0
medialseptum_gain_cck = 1.0
signal_isi = 200

[iclamp]
pyr = 0.0
bas = 0.0
olm = 0.0
cck = 0.0

[netsyn]
stdp = 0
gabaontocck_scale = 3


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