// Artificial cells no longer need a default section.
//Network cell templates
// BistratifiedCell
// Simplified version (BPG 27-9-08)
// - geometry and channels from Santhakumar et al 2005
// - geometry modified to preserve VCUs different dendrites
begintemplate BistratifiedCell
public is_art
public init, topol, basic_shape, subsets, geom, biophys
public pre_list, connect2target
public soma
public radProx1, radMed1, radDist1
public radProx2, radMed2, radDist2
public oriProx1, oriMed1, oriDist1
public oriProx2, oriMed2, oriDist2
public all
objref pre_list
proc init() {
topol()
subsets()
geom()
biophys()
geom_nseg()
pre_list = new List()
synapses()
}
create soma
create radProx1, radMed1, radDist1
create radProx2, radMed2, radDist2
create oriProx1, oriMed1, oriDist1
create oriProx2, oriMed2, oriDist2
proc topol() { local i
connect radProx1(0), soma(0)
connect radMed1(0), radProx1(1)
connect radDist1(0), radMed1(1)
connect radProx2(0), soma(1)
connect radMed2(0), radProx2(1)
connect radDist2(0), radMed2(1)
connect oriProx1(0), soma(0)
connect oriMed1(0), oriProx1(1)
connect oriDist1(0), oriMed1(1)
connect oriProx2(0), soma(1)
connect oriMed2(0), oriProx2(1)
connect oriDist2(0), oriMed2(1)
//basic_shape()
}
proc basic_shape() {
soma { pt3dclear() pt3dadd(0, 0, 0, 10) pt3dadd(15, 0, 0, 10) }
radProx1 { pt3dclear() pt3dadd(0, 0, 0, 4) pt3dadd(-14, 15, 0, 4) }
radMed1 { pt3dclear() pt3dadd(-14, 15, 0, 3) pt3dadd(-29, 30, 0, 3) }
radDist1 { pt3dclear() pt3dadd(-29, 30, 0, 2) pt3dadd(-44, 45, 0, 2) }
radProx2 { pt3dclear() pt3dadd(15, 0, 0, 4) pt3dadd(45, 30, 0, 4) }
radMed2 { pt3dclear() pt3dadd(45, 30, 0, 3) pt3dadd(75, 60, 0, 3) }
radDist2 { pt3dclear() pt3dadd(75, 60, 0, 2) pt3dadd(90, 75, 0, 2) }
oriProx1 { pt3dclear() pt3dadd(0, 0, 0, 2) pt3dadd(-29, -29, 0, 2) }
oriMed1 { pt3dclear() pt3dadd(-29, -29, 0, 1.5) pt3dadd(-59, -59, 0, 1.5) }
oriDist1 { pt3dclear() pt3dadd(-59, -59, 0, 1) pt3dadd(-89, -89, 0, 1) }
oriProx2 { pt3dclear() pt3dadd(15, 0, 0, 2) pt3dadd(45, -29, 0, 2) }
oriMed2 { pt3dclear() pt3dadd(45, -29, 0, 1.5) pt3dadd(75, -59, 0, 1.5) }
oriDist2 { pt3dclear() pt3dadd(75, -59, 0, 1) pt3dadd(105, -89, 0, 1) }
}
objref all
proc subsets() { local i
objref all
all = new SectionList()
soma all.append()
radProx1 all.append()
radMed1 all.append()
radDist1 all.append()
radProx2 all.append()
radMed2 all.append()
radDist2 all.append()
oriProx1 all.append()
oriMed1 all.append()
oriDist1 all.append()
oriProx2 all.append()
oriMed2 all.append()
oriDist2 all.append()
}
proc geom() {
forsec all { }
soma { L = 20 diam = 10 }
radProx1 { L = 100 diam = 4 }
radMed1 { L = 100 diam = 3 }
radDist1 { L = 200 diam = 2 }
radProx2 { L = 100 diam = 4 }
radMed2 { L = 100 diam = 3 }
radDist2 { L = 200 diam = 2 }
oriProx1 { L = 100 diam = 2 }
oriMed1 { L = 100 diam = 1.5 }
oriDist1 { L = 100 diam = 1 }
oriProx2 { L = 100 diam = 2 }
oriMed2 { L = 100 diam = 1.5 }
oriDist2 { L = 100 diam = 1 }
}
external lambda_f
proc geom_nseg() {
forsec all { nseg = int((L/(0.1*lambda_f(100))+.9)/2)*2 + 1 }
}
proc biophys() {
gna = 0.09
gk = 0.018
gleak = 1.0159e-04
c_m = 1.4
Vrest = -67.0
soma {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radProx1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radProx2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radMed1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radMed2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radDist1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
radDist2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriProx1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriProx2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriMed1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriMed2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriDist1 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
oriDist2 {
insert ichan2bs
gnatbar_ichan2bs = gna // Sodium conductance (original 0.015)
gkfbar_ichan2bs = gk // Delayed K+ rectifier (fast)
gl_ichan2bs = gleak // Leak conductance
cm = c_m // membrane capacitance
el_ichan2bs = Vrest
}
forsec all {
// Time constant for decay of intracellular Ca2+
// Steady-state intracellular Ca2+ concentration
insert ccanl
catau_ccanl = 10
caiinf_ccanl = 5.0e-6
cao_ccanl = 2
// A-type K+ conductance
insert borgka
gkabar_borgka = 0.00005
// N-type Ca2+ conductance
insert nca
gncabar_nca = 0.0004 // check to modify- original 0.004
// L-type Ca2+ conductance
insert lca
glcabar_lca = 0.004
// Ca2+-dependent K (SK) conductance
insert gskch
gskbar_gskch = 0.000002
// Ca2+ and Voltage-dependent K+ (BK) conductance
insert mykca
gkbar_mykca = 0.0002
Ra = 100
enat = 55
ekf = -90
eks = -90
ek = -90
elca = 130
enca = 130
}
}
obfunc connect2target() { localobj nc //$o1 target point process, optional $o2 returned NetCon
soma nc = new NetCon(&v(1), $o1)
nc.threshold = -10
if (numarg() == 2) { $o2 = nc } // for backward compatibility
return nc
}
objref syn_
proc synapses_EC() {
/* E0 */ radMed1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
/* E1 */ radMed2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
}
proc synapses_CA3() {
/* E2 */ radMed1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 Shaffer collateral
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
/* E3 */ radMed2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 Shaffer collateral
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
/* E4 */ radProx1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 Shaffer collateral
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
/* E5 */ radProx2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 Shaffer collateral
syn_.tau1 = 2.0
syn_.tau2 = 6.3
syn_.e = 0
}
proc synapses_PC() {
/* E6 */ oriProx1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA PC
syn_.tau1 = 0.11
syn_.tau2 = 0.25
syn_.e = 0
/* E7 */ oriProx2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA PC
syn_.tau1 = 0.11
syn_.tau2 = 0.25
syn_.e = 0
}
proc synapses_IN() {
/* I8 */ soma syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A Basket cell
syn_.tau1 = 0.29
syn_.tau2 = 2.67
syn_.e = -75
/* I9 */ radMed1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A Bistratified cell
syn_.tau1 = 0.29
syn_.tau2 = 2.67
syn_.e = -75
/* I10 */ radMed2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A Bistratified cell
syn_.tau1 = 0.29
syn_.tau2 = 2.67
syn_.e = -75
/* I11 */ radDist1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cell
syn_.tau1 = 0.60
syn_.tau2 = 15.0
syn_.e = -75
/* I12 */ radDist2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cell
syn_.tau1 = 0.60
syn_.tau2 = 15.0
syn_.e = -75
/* I13 */ soma syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A VIP/CCK cell
syn_.tau1 = 0.43
syn_.tau2 = 4.49
syn_.e = -75
}
proc synapses_SEP() {
/* I14 */ oriProx1 syn_ = new MyExp2Syn(0.6) pre_list.append(syn_) // GABA-A Septum
syn_.tau1 = 1
syn_.tau2 = 8
syn_.e = -75
/* I15 */ oriProx2 syn_ = new MyExp2Syn(0.6) pre_list.append(syn_) // GABA-A Septum
syn_.tau1 = 1
syn_.tau2 = 8
syn_.e = -75
/* I16 */ oriProx1 syn_ = new MyExp2Syn(0.6) pre_list.append(syn_) // GABA-B Septum
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I17 */ oriProx2 syn_ = new MyExp2Syn(0.6) pre_list.append(syn_) // GABA-B Septum
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
}
proc synapses() {
synapses_EC()
synapses_CA3()
synapses_PC()
synapses_IN()
synapses_SEP()
}
func is_art() { return 0 }
endtemplate BistratifiedCell