// New version of Granule cell with Calcium in dendrites
// Multicompartmental model - cell template
// Shyam Diwakar M.
// Last modified 5-Feb-2007
begintemplate GrC
ndend = 4
nsg = 5
naxon = 56
npf=500
public soma,synA,synNS,synG,Area,CC,dend_1,dend_2,dend_3,dend_4,hillock,axon,pf
public connect_pre,rescale,Us
public list_go_grc,list_con_inhib
public branch0,branch1,branch2,branch3,br0,br1,br2,br3
public SpikeTrain
create soma,hillock[1],axon[1],dend_1[1],dend_2[1],dend_3[1],dend_4[1],pf[1]//,branch0,branch1,branch2,branch3,br0,br1,br2,br3
objref synNS[4],synA[4],synG[4]
objref list_go_grc,list_con_inhib
objref Inhib[4],CC
//objref gol_rec
objref SpikeTrain,nil,netcon
proc init() {
list_go_grc=new List()
list_con_inhib=new List()
//gol_rec=new Vector()
if(numarg()==5){ndend=$1 nsg =$2 nbut=$3 naxon=$4 npf=$5} else {ndend=4 nsg=5 nbut=20 naxon=56 npf=500}
create soma, hillock[nsg],axon[naxon],dend_1[ndend],dend_2[ndend],dend_3[ndend],dend_4[ndend],pf[npf]//,branch0,branch1,branch2,branch3,br0,br1,br2,br3
soma {
access soma
nseg = 1
diam = 5.8//6.06
L = 5.8//6.16
cm = 1
Ra = 100
celsius=30
//for membrane current
//insert extracellular
// Soma Channels
insert GRC_LKG1
insert GRC_LKG2
ggaba_GRC_LKG2 = 3e-05
insert GRC_KIR
insert GRC_KA
insert GRC_KM
usetable_GRC_KA = 0 // 1
usetable_GRC_KIR = 0 // 1
usetable_GRC_KM = 0 // 1
insert GRC_NA
insert GRC_KV
usetable_GRC_NA = 0 // 1
usetable_GRC_KV = 0 // 1
insert GRC_KCA
usetable_GRC_KCA = 0 // 1
gkbar_GRC_KCA = 0//0.010041491 // 1
insert GRC_CA
usetable_GRC_CA = 0 // 1
gcabar_GRC_CA = 0//0.001154771 // 1
insert GRC_CALC
beta_GRC_CALC = 1.5
ena = 87.39
ek = -84.69
eca = 129.33
ecl = -65
//CC =new VClamp(0.5)
Area = L*diam*PI*1e-8
}
// Hillock definition
for(w1=0;w1<nsg;w1=w1+1) {
hillock[w1] {
access hillock[w1]
nseg = 1
diam = 2.3-0.5*w1
L = 0.5
cm = 1
Ra = 100
// Hillock Channels
insert GRC_LKG1
// insert GRC_Lkg2
//insert extracellular
insert GRC_NA
insert GRC_KV
usetable_GRC_NA = 0 // 1
usetable_GRC_KV = 0 // 1
ena = 87.39
ek = -84.69
//Area = PI*L*diam*1e-8
}
}
for(w3=0;w3<naxon;w3=w3+1) {
axon[w3] { // Axon definition
access axon[w3]
nseg = 1
diam = 0.15
L = 2.3367
cm = 1
Ra = 100
// Axon Channels
insert GRC_LKG3
insert GRC_NA
insert GRC_KV
usetable_GRC_NA = 0 // 1
usetable_GRC_KV = 0 // 1
//insert extracellular
ena = 87.39
ek = -84.69
}
}
for(w2=0;w2<ndend;w2=w2+1) {
dend_1[w2] {
access dend_1[w2]
nseg = 1
diam = 0.75
L = 5
cm = 1
Ra = 100
// Dendritic Channels
insert GRC_LKG1
insert GRC_LKG2
ggaba_GRC_LKG2 = 3e-05
insert GRC_KIR
usetable_GRC_KIR = 0 // 1
gkbar_GRC_KIR=0
//insert extracellular
insert GRC_KA
usetable_GRC_KA = 0 // 1
gkbar_GRC_KA=0
insert GRC_KCA
usetable_GRC_KCA = 0 // 1
gkbar_GRC_KCA = 0//0.010041491 // 1
insert GRC_CA
usetable_GRC_CA = 0 // 1
gcabar_GRC_CA = 0//0.001154771 // 1
insert GRC_CALC
beta_GRC_CALC = 1.5
eca = 129.33
ek = -84.69
}
}
// Dendrite definition: second compartment
for(w2=0;w2<ndend;w2=w2+1) {
dend_2[w2] {
access dend_2[w2]
nseg = 1
diam = 0.75
L = 5
cm = 1
Ra = 100
//insert extracellular
// Dendritic Channels
insert GRC_LKG1
insert GRC_LKG2
ggaba_GRC_LKG2 = 3e-05
insert GRC_KIR
usetable_GRC_KIR = 0 // 1
gkbar_GRC_KIR=0
insert GRC_KA
usetable_GRC_KA = 0 // 1
gkbar_GRC_KA=0
insert GRC_KCA
usetable_GRC_KCA = 0 // 1
gkbar_GRC_KCa = 0//.010041491 // 1
insert GRC_CA
usetable_GRC_CA = 0 // 1
gcabar_GRC_CA = 0//.001154771 // 1
insert GRC_CALC
beta_GRC_CALC = 1.5
eca = 129.33
ek = -84.69
}
}
// Dendrite definition: third compartment
//
for(w2=0;w2<ndend;w2=w2+1) {
dend_3[w2] {
access dend_3[w2]
nseg = 1
diam = 0.75
L = 2.5
cm = 1
Ra = 100
// Dendritic Channels
insert GRC_LKG1
insert GRC_LKG2
ggaba_GRC_LKG2 = 3e-05
insert GRC_KIR
usetable_GRC_KIR = 0 // 1
gkbar_GRC_KIR=0
//insert extracellular
insert GRC_KA
usetable_GRC_KA = 0 // 1
gkbar_GRC_KA=0
insert GRC_KCA
usetable_GRC_KCA = 0 // 1
gkbar_GRC_KCA = 0//.010041491 // 1
insert GRC_CA
usetable_GRC_CA = 0 // 1
gcabar_GRC_CA = 0//.001154771 // 1
insert GRC_CALC
beta_GRC_CALC = 1.5
eca = 129.33
ek = -84.69
synG[w2] = new GRC_GABA(0.5)
}
}
// Dendrite definition: fourth compartment
//
for(w2=0;w2<ndend;w2=w2+1) {
dend_4[w2] {
access dend_4[w2]
nseg = 1
diam = 0.75
L = 2.5
cm = 1
Ra = 100
//insert extracellular
// Dendritic Channels
insert GRC_LKG1
insert GRC_LKG2
ggaba_GRC_LKG2 = 3e-05
insert GRC_CA
insert GRC_KIR
usetable_GRC_KIR = 0 // 1
gkbar_GRC_KIR=0
insert GRC_KA
usetable_GRC_KA = 0 // 1
gkbar_GRC_KA=0
insert GRC_KCA
usetable_GRC_KCA = 0 // 1
insert GRC_CA
usetable_GRC_CA = 0 // 1
insert GRC_CALC
beta_GRC_CALC = 1.5
eca = 129.33
ek = -84.69
synA[w2] = new AmpaCOD(0.5)
synNS[w2] = new NMDAS(0.5)
//synNES[i] = new NMDAES(0.5)
}
}
for(p1=0;p1<npf;p1=p1+1) {
pf[p1] { // pf definition
access pf[p1]
nseg = 1
diam = 0.15
L = 10
cm = 1
Ra = 100
// Pf Channels
insert GRC_LKG3
insert GRC_NA
insert GRC_KV
usetable_GRC_NA = 0 // 1
usetable_GRC_KV = 0 // 1
//insert extracellular
ena = 87.39
ek = -84.69
}
}/*
branch0 {
access branch0
nseg = 1
diam = 0.15//0.1//6.06
L = 3//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
branch1 {
access branch1
nseg = 1
diam = 0.1//0.1//6.06
L = 5//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
branch2 {
access branch2
nseg = 1
diam = 0.05//0.1//6.06
L = 10//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
branch3 {
access branch3
nseg = 1
diam = 0.025//0.1//6.06
L = 20//200//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
br0 {
access br0
nseg = 1
diam = 0.15//0.1//6.06
L = 3//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
br1 {
access br1
nseg = 1
diam = 0.1//0.1//6.06
L = 5//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
br2 {
access br2
nseg = 1
diam = 0.05//0.1//6.06
L = 10//100//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}
br3 {
access br3
nseg = 1
diam = 0.025//0.1//6.06
L = 20//200//6.16
cm = 1
Ra = 100//e3
celsius=30
insert GRC_LKG3
// insert extracellular
}*/
for(i=0;i<ndend;i=i+1){
connect dend_4[i](1), dend_3[i](0)
connect dend_3[i](1), dend_2[i](0)
connect dend_2[i](1), dend_1[i](0)
connect dend_1[i](1), soma(0)
}
connect soma(1), hillock[0](0)
connect hillock[0](1), hillock[1](0)
connect hillock[1](1), hillock[2](0)
connect hillock[2](1), hillock[3](0)
connect hillock[3](1), hillock[4](0)
connect hillock[4](1), axon[0](0)
for(i=0;i<naxon-1;i=i+1) {
connect axon[i](1), axon[i+1](0)
}
connect axon[naxon-1](1),pf[250](0.5)
connect pf[0](1), pf[1](0)
for(i=1;i<npf-1;i=i+1) {
connect pf[i](1), pf[i+1](0)
}
//connect axon[naxon-1](1),branch0(0)
/*connect branch0(0), pf[0](0)
connect branch0(1),branch1(0)
connect branch1(1),branch2(0)
connect branch2(1),branch3(0)
connect pf[npf-1](1),br0(0)
connect br0(1),br1(0)
connect br1(1),br2(0)
connect br2(1),br3(0)*/
Area_soma = PI*soma.diam*soma.L*1e-8
//Area_axon = 0 //not necessary (seems)
//Area_dendrites = 0 //not necessary
}
endtemplate GrC
