A 1000 cell network model for Lateral Amygdala (Kim et al. 2013)

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Accession:150288
1000 Cell Lateral Amygdala model for investigation of plasticity and memory storage during Pavlovian Conditioning.
Reference:
1 . Kim D, Pare D, Nair SS (2013) Mechanisms contributing to the induction and storage of Pavlovian fear memories in the lateral amygdala. Learn Mem 20:421-30 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network; Neuron or other electrically excitable cell; Synapse; Dendrite;
Brain Region(s)/Organism: Amygdala;
Cell Type(s): Hippocampus CA1 pyramidal cell; Hippocampus CA3 pyramidal cell; Hodgkin-Huxley neuron;
Channel(s): I Na,t; I L high threshold; I A; I M; I Sodium; I Calcium; I Potassium; I_AHP; Ca pump;
Gap Junctions:
Receptor(s): AMPA; NMDA; Gaba; Dopaminergic Receptor;
Gene(s):
Transmitter(s): Dopamine; Norephinephrine;
Simulation Environment: NEURON;
Model Concept(s): Synaptic Plasticity; Short-term Synaptic Plasticity; Long-term Synaptic Plasticity; Learning; Neuromodulation;
Implementer(s): Kim, Dongbeom [dk258 at mail.missouri.edu];
Search NeuronDB for information about:  Hippocampus CA1 pyramidal cell; Hippocampus CA3 pyramidal cell; AMPA; NMDA; Gaba; Dopaminergic Receptor; I Na,t; I L high threshold; I A; I M; I Sodium; I Calcium; I Potassium; I_AHP; Ca pump; Dopamine; Norephinephrine;
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KimEtAl2013
README.txt
bg2inter.mod
bg2pyr.mod
ca.mod *
cadyn.mod
cal2.mod *
capool.mod *
function_TMonitor.mod *
h.mod *
im.mod
interD2pyrD_STFD.mod
interD2pyrDDA_STFD.mod
interD2pyrDDANE_STFD.mod
interD2pyrDNE_STFD.mod
interD2pyrV_STFD.mod
interD2pyrVDA_STFD.mod
interV2pyrD_STFD.mod
interV2pyrDDA_STFD.mod
interV2pyrDDANE_STFD.mod
interV2pyrDNE_STFD.mod
interV2pyrV_STFD.mod
interV2pyrVDA_STFD.mod
kadist.mod *
kaprox.mod
kdrca1.mod
kdrca1DA.mod
kdrinter.mod *
leak.mod *
leakDA.mod *
leakinter.mod *
na3.mod
na3DA.mod
nainter.mod *
pyrD2interD_STFD.mod
pyrD2interV_STFD.mod
pyrD2pyrD_STFD.mod
pyrD2pyrDDA_STFD.mod
pyrD2pyrV_STFD.mod
pyrD2pyrVDA_STFD.mod
pyrV2interD_STFD.mod
pyrV2interV_STFD.mod
pyrV2pyrD_STFD.mod
pyrV2pyrDDA_STFD.mod
pyrV2pyrV_STFD.mod
pyrV2pyrVDA_STFD.mod
sahp.mod
sahpNE.mod
shock2interD.mod
shock2interV.mod
shock2pyrD.mod
shock2pyrV.mod
tone2interD.mod
tone2interDNE.mod
tone2interV.mod
tone2interVNE.mod
tone2pyrD.mod
tone2pyrD_LAdv.mod
tone2pyrDNE.mod
tone2pyrDNE_LAdv.mod
tone2pyrV.mod
tone2pyrV_LAdd.mod
tone2pyrVNE.mod
tone2pyrVNE_LAdd.mod
BgGen.hoc
Cell_list.txt
Cell_type.txt
function_ConnectInternal.hoc
function_ConnectTwoCells.hoc
function_NetStimOR.hoc
function_TimeMonitor.hoc
function_ToneGen.hoc
function_ToneSignalGen_Ctx.hoc
function_ToneSignalGen_Th.hoc
interneuron_template.hoc
LA_model_main_file.hoc
LAcells_template.hoc
NM.txt
shock2Idd.txt
shock2Idv.txt
shock2LAdd.txt
shock2LAdv.txt
shockcondi.hoc
Syn_Matrix.txt
tone2Idd.txt
tone2Idd2.txt
tone2Idv.txt
tone2Idv2.txt
tone2LAdd.txt
tone2LAdd2.txt
tone2LAdv.txt
tone2LAdv2.txt
                            
TITLE K-A channel from Klee Ficker and Heinemann
: modified to account for Dax A Current ----------
: M.Migliore Jun 1997

UNITS {
        (mA) = (milliamp)
        (mV) = (millivolt)
}

PARAMETER {
	celsius
        v (mV)
        gkabar=.008 (mho/cm2)
        vhalfn=-1   (mV)
        vhalfl=-56   (mV)
        a0l=0.05      (/ms)
        a0n=.1    (/ms)
        zetan=-1.8    (1)
        zetal=3    (1)
        gmn=0.39   (1)
        gml=1   (1)
        lmin=2  (mS)
        nmin=0.2  (mS)
        pw=-1    (1)
        tq=-40
        qq=5
        q10=5
        qtl=1
	ek
}


NEURON {
        SUFFIX kad
        USEION k READ ek WRITE ik
        RANGE gkabar,gka
        GLOBAL ninf,linf,taul,taun,lmin
}

STATE {
        n
        l
}

ASSIGNED {
        ik (mA/cm2)
        ninf
        linf      
        taul
        taun
        gka
}

BREAKPOINT {
        SOLVE states METHOD cnexp
        gka = gkabar*n*l
        ik = gka*(v-ek)

}

INITIAL {
	rates(v)
	n=ninf
	l=linf
}


FUNCTION alpn(v(mV)) {
LOCAL zeta
  zeta=zetan+pw/(1+exp((v-tq)/qq))
  alpn = exp(1.e-3*zeta*(v-vhalfn)*9.648e4/(8.315*(273.16+celsius))) 
}

FUNCTION betn(v(mV)) {
LOCAL zeta
  zeta=zetan+pw/(1+exp((v-tq)/qq))
  betn = exp(1.e-3*zeta*gmn*(v-vhalfn)*9.648e4/(8.315*(273.16+celsius))) 
}

FUNCTION alpl(v(mV)) {
  alpl = exp(1.e-3*zetal*(v-vhalfl)*9.648e4/(8.315*(273.16+celsius))) 
}

FUNCTION betl(v(mV)) {
  betl = exp(1.e-3*zetal*gml*(v-vhalfl)*9.648e4/(8.315*(273.16+celsius)))
 
}

DERIVATIVE states {  
        rates(v)
        n' = (ninf - n)/taun
        l' = (linf - l)/taul
}

PROCEDURE rates(v (mV)) { :callable from hoc
        LOCAL a,qt
        qt=q10^((celsius-24)/10)
        a = alpn(v)
        ninf = 1/(1 + a)
        taun = betn(v)/(qt*a0n*(1+a))
        if (taun<nmin) {taun=nmin}
        a = alpl(v)
        linf = 1/(1+ a)
        taul = 0.26*(v+50)/qtl
        if (taul<lmin/qtl) {taul=lmin/qtl}
}


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