// Network cell template
// PyramidalCell
// Geometry: 14 sections + axon
// Active properties: from Poirazi et al, Neuron 2003
// Adjusted to get more decrementing BPAP
// BPG & VCU, 2-1-09
begintemplate PyramidalCell
public is_art
public init, topol, basic_shape, subsets, geom, biophys
public pre_list, connect2target
public soma, radTprox, radTmed, radTdist // apical trunk
public lm_thick1, lm_medium1, lm_thin1a, lm_thin1b // slm 1
public lm_thick2, lm_medium2, lm_thin2a, lm_thin2b // slm 2
public rad_thick1, rad_medium1, rad_thin1a, rad_thin1b // rad 1
public rad_thick2, rad_medium2, rad_thin2a, rad_thin2b // rad 2
public oriprox1, oridist1a, oridist1b, oriprox2, oridist2a, oridist2b // basal dends
public axon
public all
objref pre_list
proc init() {
topol()
subsets()
geom()
biophys()
geom_nseg()
pre_list = new List()
synapses()
}
create soma, radTprox, radTmed, radTdist // apical trunk
create lm_thick1, lm_medium1, lm_thin1a, lm_thin1b // slm 1
create lm_thick2, lm_medium2, lm_thin2a, lm_thin2b // slm 2
create rad_thick1, rad_medium1, rad_thin1a, rad_thin1b // rad 1
create rad_thick2, rad_medium2, rad_thin2a, rad_thin2b // rad 2
create oriprox1, oridist1a, oridist1b, oriprox2, oridist2a, oridist2b // basal dends
create axon
proc topol() { local i
connect radTprox(0), soma(1)
connect radTmed(0), radTprox(1)
connect radTdist(0), radTmed(1)
connect lm_thick2(0), radTdist(1)
connect lm_medium2(0), lm_thick2(1)
connect lm_thin2a(0), lm_medium2(1)
connect lm_thin2b(0), lm_medium2(1)
connect lm_thick1(0), radTdist(1)
connect lm_medium1(0), lm_thick1(1)
connect lm_thin1a(0), lm_medium1(1)
connect lm_thin1b(0), lm_medium1(1)
connect rad_thick2(0), radTprox(1)
connect rad_medium2(0), rad_thick2(1)
connect rad_thin2a(0), rad_medium2(1)
connect rad_thin2b(0), rad_medium2(1)
connect rad_thick1(0), radTprox(1)
connect rad_medium1(0), rad_thick1(1)
connect rad_thin1a(0), rad_medium1(1)
connect rad_thin1b(0), rad_medium1(1)
connect oriprox1(0), soma(0)
connect oridist1a(0), oriprox1(1)
connect oridist1b(0), oriprox1(1)
connect oriprox2(0), soma(0)
connect oridist2a(0), oriprox2(1)
connect oridist2b(0), oriprox2(1)
connect axon(0), soma(0)
//basic_shape()
}
proc basic_shape() {
soma { pt3dclear() pt3dadd(-7, 0, 0, 10) pt3dadd(8, 0, 0, 10) }
radTprox { pt3dclear() pt3dadd(0, 0, 0, 4) pt3dadd(0, 100, 0, 4) }
radTmed { pt3dclear() pt3dadd(0, 100, 0, 3) pt3dadd(0, 200, 0, 3) }
radTdist { pt3dclear() pt3dadd(0, 200, 0, 2) pt3dadd(0, 400, 0, 2) }
rad_thick1 { pt3dclear() pt3dadd(15, 0, 0, 2) pt3dadd(60, 45, 0, 2) }
rad_medium1 { pt3dclear() pt3dadd(60, 45, 0, 1.5) pt3dadd(90, 75, 0, 1.5) }
rad_thick2 { pt3dclear() pt3dadd(-15, 0, 0, 2) pt3dadd(-60, 45, 0, 2) }
rad_medium2 { pt3dclear() pt3dadd(-60, 45, 0, 1.5) pt3dadd(-90, 75, 0, 1.5) }
rad_thin2a { pt3dclear() pt3dadd(-90, 75, 0, 1) pt3dadd(-110, 155, 0, 1) }
rad_thin2b { pt3dclear() pt3dadd(-90, 75, 0, 1) pt3dadd(-160, 105, 0, 1) }
rad_thin1a { pt3dclear() pt3dadd(90, 75, 0, 1) pt3dadd(110, 155, 0, 1) }
rad_thin1b { pt3dclear() pt3dadd(90, 75, 0, 1) pt3dadd(160, 105, 0, 1) }
lm_thick1 { pt3dclear() pt3dadd(0, 200, 0, 2) pt3dadd(25, 240, 0, 2) }
lm_medium1 { pt3dclear() pt3dadd(25, 240, 0, 1.5) pt3dadd(50, 275, 0, 1.5) }
lm_thin1a { pt3dclear() pt3dadd(50, 275, 0, 1) pt3dadd(70, 345, 0, 1) }
lm_thin1b { pt3dclear() pt3dadd(50, 275, 0, 1) pt3dadd(110, 315, 0, 1) }
lm_thick2 { pt3dclear() pt3dadd(0, 200, 0, 2) pt3dadd(-25, 240, 0, 2) }
lm_medium2 { pt3dclear() pt3dadd(-25, 240, 0, 1.5) pt3dadd(-50, 275, 0, 1.5) }
lm_thin2a { pt3dclear() pt3dadd(-50, 275, 0, 1) pt3dadd(-70, 345, 0, 1) }
lm_thin2b { pt3dclear() pt3dadd(-50, 275, 0, 1) pt3dadd(-110, 315, 0, 1) }
oriprox1 { pt3dclear() pt3dadd(-7, 0, 0, 2) pt3dadd(45, -29, 0, 2) }
oridist1a { pt3dclear() pt3dadd(45, -29, 0, 1.5) pt3dadd(75, -90, 0, 1.5) }
oridist1b { pt3dclear() pt3dadd(45, -29, 0, 1.5) pt3dadd(90, -20, 0, 1.5) }
oriprox2 { pt3dclear() pt3dadd(-7, 0, 0, 2) pt3dadd(-45, -29, 0, 2) }
oridist2a { pt3dclear() pt3dadd(-45, -29, 0, 1.5) pt3dadd(-75, -90, 0, 1.5) }
oridist2b { pt3dclear() pt3dadd(-45, -29, 0, 1.5) pt3dadd(-90, -20, 0, 1.5) }
axon { pt3dclear() pt3dadd(15, 0, 0, 1) pt3dadd(15, -149, 0, 1) }
}
objref all
proc subsets() { local i
objref all
all = new SectionList()
soma all.append()
radTprox all.append()
radTmed all.append()
radTdist all.append()
lm_thick1 all.append()
lm_medium1 all.append()
lm_thin1a all.append()
lm_thin1b all.append()
lm_thick2 all.append()
lm_medium2 all.append()
lm_thin2a all.append()
lm_thin2b all.append()
rad_thick1 all.append()
rad_medium1 all.append()
rad_thin1a all.append()
rad_thin1b all.append()
rad_thick2 all.append()
rad_medium2 all.append()
rad_thin2a all.append()
rad_thin2b all.append()
oriprox1 all.append()
oridist1a all.append()
oridist1b all.append()
oriprox2 all.append()
oridist2a all.append()
oridist2b all.append()
axon all.append()
}
proc geom() {
soma { L = 10 diam = 10 }
// SR is first 500um of apical dendrite
radTprox { L = 100 diam = 4.0 }
radTmed { L = 100 diam = 3.0 }
radTdist { L = 200 diam = 2.0 }
// OLM is final 300um of apical dendrite
lm_thick1 { L = 100 diam = 2.0 }
lm_medium1 { L = 100 diam = 1.5 }
lm_thin1a { L = 50 diam = 1.0 }
lm_thin1b { L = 50 diam = 1.0 }
lm_thick2 { L = 100 diam = 2.0 }
lm_medium2 { L = 100 diam = 1.5 }
lm_thin2a { L = 50 diam = 1.0 }
lm_thin2b { L = 50 diam = 1.0 }
// Radiatum is final 300um of apical dendrite
rad_thick1 { L = 100 diam = 2.0 }
rad_medium1 { L = 100 diam = 1.5 }
rad_thin1a { L = 50 diam = 1.0 }
rad_thin1b { L = 50 diam = 1.0 }
rad_thick2 { L = 100 diam = 2.0 }
rad_medium2 { L = 100 diam = 1.5 }
rad_thin2a { L = 50 diam = 1.0 }
rad_thin2b { L = 50 diam = 1.0 }
// Basal dendrites extend 300 um
oriprox1 { L = 100 diam = 2.0 }
oridist1a { L = 100 diam = 1.5 }
oridist1b { L = 100 diam = 1.5 }
oriprox2 { L = 100 diam = 2.0 }
oridist2a { L = 100 diam = 1.5 }
oridist2b { L = 100 diam = 1.5 }
// Short section of axon
axon { L = 150 diam = 1.0 }
}
external lambda_f
proc geom_nseg() {
forsec all { nseg = int((L/(0.1*lambda_f(100))+.9)/2)*2 + 1 }
}
proc biophys() {
// Rm = 28000 // Ohm.cm^2 (Migliore value)
Rm = 28000 // Ohm.cm^2 (Migliore value)
gka_soma = 0.0075 // for Rinput validation
gh_soma = 0.00005
soma {
// HH mechanism with low threshold for Na spikes (-57 mV)
insert hha2
gnabar_hha2 = 0.007
gkbar_hha2 = 0.007/10
gl_hha2 = 0
el_hha2 = -70
// leak conductance
insert pas
g_pas = 1/Rm
// h current according to Migliore et al. 2004
insert h
ghdbar_h = gh_soma
vhalfl_h = -73
// proximal A current
insert kap
gkabar_kap = gka_soma //0.0075
// m-type potassium current
insert km
gbar_km = 0.06 // (pS/um2)
// HVA Ca++-L type current
insert cal
gcalbar_cal = 0.0014/2
// LVA Ca++-T type current
insert cat
gcatbar_cat = 0.0001/2
// HVAm Ca++-R type current
insert somacar
gcabar_somacar = 0.0003
// K(Ca) sAHP potassium type current
insert kca
gbar_kca = 15*0.0001
// medium AHP K++ current (BPG)
insert mykca
gkbar_mykca = 0.09075*5
// calcium pump/buffering mechanism
insert cad
}
radTprox {
// h current according to Migliore et al. 2004
insert h
ghdbar_h = 2*gh_soma //0.000005
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
// calcium pump/buffering mechanism
insert cad
// slow AHP K+ current
insert kca
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
// medium AHP K++ current (BPG)
insert mykca
gkbar_mykca = 2*0.0165
// m-type K current
insert km
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
// Inserting A-current
insert kap
gkabar_kap = 2*gka_soma //0.0075
insert kad
gkabar_kad = 0
// HH mechanism with high threshold for Na spikes (-50 mV)
insert hha_old
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
// leak conductance
insert pas
}
radTmed {
// h current according to Migliore et al. 2004
insert h
ghdbar_h = 4*gh_soma // 0.000005
vhalfl_h = -81
// HVAm Ca++-R type current
insert car
gcabar_car = 0.1*0.0003
// HVA L-type Ca2+ channel used in distal dendrites to account for
insert calH
gcalbar_calH = 10*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
// HVA T-type Ca2+ channel
insert cat
gcatbar_cat = 0.0001 // 0.0001
// calcium pump/buffering mechanism
insert cad
// slow AHP K+ current
insert kca
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
// medium AHP K++ current (BPG)
insert mykca
gkbar_mykca = 2*0.0165
// m-type K current
insert km
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
// Inserting A-current
insert kap
gkabar_kap = 0
insert kad
gkabar_kad = 4*gka_soma
// HH mechanism with high threshold for Na spikes (-50 mV)
insert hha_old
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
// leak conductance
insert pas
}
radTdist {
insert h // h current according to Migliore et al. 2004
ghdbar_h = 7*gh_soma // 0.000005
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 10*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 0.5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 0.25*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = 0
insert kad
gkabar_kad = 6*gka_soma
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
rad_thick1 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_medium1 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_thin1a {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_thin1b {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_thick2 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_medium2 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_thin2a {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
rad_thin2b {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thick1 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_medium1 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thin1a {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thin1b {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thick2 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_medium2 {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thin2a {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
lm_thin2b {
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
gl_hha_old = 0
insert pas // passive properties
g_pas = 1/200000
insert kad // Insert basal A current
gkabar_kad = 6.5*gka_soma
}
oriprox1 {
insert h // h current according to Migliore et al. 2004
ghdbar_h = gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = gka_soma //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
oridist1a {
insert h // h current according to Migliore et al. 2004
ghdbar_h = 1.5*gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = gka_soma //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
oridist1b {
insert h // h current according to Migliore et al. 2004
ghdbar_h = 2*gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from 4.6*0.00031635 to 0.1*0.00031635
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = gka_soma //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
oriprox2 {
insert h // h current according to Migliore et al. 2004
ghdbar_h = gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = 0.0075 //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
oridist2a {
insert h // h current according to Migliore et al. 2004
ghdbar_h = 1.5*gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from .1*0.00031635 to 4.6*0.00031635 as distance increases
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = gka_soma //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
oridist2b {
insert h // h current according to Migliore et al. 2004
ghdbar_h = 2*gh_soma
vhalfl_h = -81
insert car
gcabar_car = 0.1*0.0003
insert calH
gcalbar_calH = 0.1*0.00031635 // varies from 4.6*0.00031635 to 0.1*0.00031635
insert cat
gcatbar_cat = 0.0001
insert cad // calcium pump/buffering mechanism
insert kca // slow AHP K+ current
gbar_kca = 5*0.0001 // varies depending on distance from 0.5*0.0001 to 5*0.0001
insert mykca // medium AHP K++ current (BPG)
gkbar_mykca = 2*0.0165
insert km // m-type K current
gbar_km = 0.06 // varies with distance (see Poirazi et al. 2003 cell-setup.hoc file)
insert kap // Inserting A-current
gkabar_kap = 0.0075 //0.0075
insert kad
gkabar_kad = 0
insert hha_old // HH mechanism with high threshold for Na spikes (-50 mV)
gnabar_hha_old = 0.007
gkbar_hha_old = 0.007/8.065
el_hha_old = -70
insert pas // leak conductance
}
axon {
insert hha2 // HH mechanism with low threshold for Na spikes (-57 mV)
gnabar_hha2 = 0.2
gkbar_hha2 = 0.1/5
gl_hha2 = 0.000002
el_hha2 = -70
insert pas // leak conductance
g_pas = 1/Rm
insert km // m-type potassium current
gbar_km = 0.5*0.06
}
forsec all {
ek = -80
ena = 50
e_pas = -70
g_pas = 1/Rm // crucial parameter for backpropagating action potential spiking of PCs
// Ra = 50
Ra = 150
cm = 1
}
}
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_AMPA() {
/* E0 */ lm_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E1 */ lm_thin1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E2 */ lm_thin1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E3 */ lm_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E4 */ lm_thin2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E5 */ lm_thin2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA EC input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
}
proc synapses_EC_NMDA() {
/* E6 */ lm_medium1 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E7 */ lm_thin1a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E8 */ lm_thin1b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E9 */ lm_medium2 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E10 */ lm_thin2a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E11 */ lm_thin2b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA EC input
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
}
proc synapses_CA3_AMPA_apical() {
/* E12 */ rad_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E13 */ rad_thin1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E14 */ rad_thin1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E15 */ rad_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E16 */ rad_thin2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E17 */ rad_thin2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
}
proc synapses_CA3_NMDA_apical() {
/* E18 */ rad_medium1 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E19 */ rad_thin1a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E20 */ rad_thin1b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E21 */ rad_medium2 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E22 */ rad_thin2a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E23 */ rad_thin2b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 Schaffer collaterals
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
}
proc synapses_CA3_AMPA_basal() {
/* E24 */ oriprox1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E25 */ oridist1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E26 */ oridist1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E27 */ oriprox2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E28 */ oridist2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
/* E29 */ oridist2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA CA3 input - basal
syn_.tau1 = 0.5
syn_.tau2 = 3.0
syn_.e = 0
}
proc synapses_CA3_NMDA_basal() {
/* E30 */ oriprox1 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E31 */ oridist1a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E32 */ oridist1b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E33 */ oriprox2 syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E34 */ oridist2a syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
/* E35 */ oridist2b syn_ = new NMDA(0.5) pre_list.append(syn_) // NMDA CA3 - basal
syn_.tcon = 2.3
syn_.tcoff = 100
syn_.gNMDAmax = 1 // use connection weight to determine max cond
}
proc synapses_GABA_soma_axon() {
/* I36 */ soma syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A B cell
syn_.tau1 = 0.30
syn_.tau2 = 6.20
syn_.e = -75
/* I37 */ soma syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A VIP/CCK cell
syn_.tau1 = 0.7 //0.20
syn_.tau2 = 7.1 //4.20
syn_.e = -75
/* I38 */ axon syn_ = new MyExp2Syn(0.1) pre_list.append(syn_) // GABA-A AA cell
syn_.tau1 = 0.28
syn_.tau2 = 8.40
syn_.e = -75
}
proc synapses_GABAA_OLM() {
/* I39 */ lm_thick1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I40 */ lm_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I41 */ radTdist syn_ = new MyExp2Syn(0.75) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I42 */ radTdist syn_ = new MyExp2Syn(1.0) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I43 */ lm_thick2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I44 */ lm_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I45 */ radTdist syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
/* I46 */ radTdist syn_ = new MyExp2Syn(0.25) pre_list.append(syn_) // GABA-A OLM cells
syn_.tau1 = 0.13
syn_.tau2 = 11.0
syn_.e = -75
}
proc synapses_GABAB_OLM() {
/* I47 */ lm_thick1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I48 */ lm_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I49 */ radTdist syn_ = new MyExp2Syn(0.75) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I50 */ radTdist syn_ = new MyExp2Syn(1.0) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I51 */ lm_thick2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I52 */ lm_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I53 */ radTdist syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I54 */ radTdist syn_ = new MyExp2Syn(0.25) pre_list.append(syn_) // GABA-B OLM cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
}
proc synapses_GABAA_BS() {
/* I55 */ rad_thick1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I56 */ rad_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I57 */ rad_thin1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I58 */ rad_thin1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I59 */ rad_thick2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I60 */ rad_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I61 */ rad_thin2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I62 */ rad_thin2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
}
proc synapses_GABAB_BS() {
/* I63 */ rad_thick1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I64 */ rad_medium1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I65 */ rad_thin1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I66 */ rad_thin1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I67 */ rad_thick2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I68 */ rad_medium2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I69 */ rad_thin2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I70 */ rad_thin2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
}
proc synapses_GABAA_BSBasal() {
/* I71 */ oridist1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I72 */ oridist1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I73 */ oridist2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I74 */ oridist2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I75 */ oriprox1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
/* I76 */ oriprox2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-A BS cells
syn_.tau1 = 0.11
syn_.tau2 = 9.70
syn_.e = -75
}
proc synapses_GABAB_BSBasal() {
/* I77 */ oridist1a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I78 */ oridist1b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I79 */ oridist2a syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I80 */ oridist2b syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I81 */ oriprox1 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
/* I82 */ oriprox2 syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // GABA-B BS cells
syn_.tau1 = 35
syn_.tau2 = 100
syn_.e = -75
}
proc synapses_AMPA_recurrent() {
/* E83 */ radTprox syn_ = new MyExp2Syn(0.5) pre_list.append(syn_) // AMPA PC recurrent input
syn_.tau1 = 0.10
syn_.tau2 = 1.50
syn_.e = 0
}
proc synapses() {
synapses_EC_AMPA()
synapses_EC_NMDA()
synapses_CA3_AMPA_apical()
synapses_CA3_NMDA_apical()
synapses_CA3_AMPA_basal()
synapses_CA3_NMDA_basal()
synapses_GABA_soma_axon()
synapses_GABAA_OLM()
synapses_GABAB_OLM()
synapses_GABAA_BS()
synapses_GABAB_BS()
synapses_GABAA_BSBasal()
synapses_GABAB_BSBasal()
synapses_AMPA_recurrent()
}
func is_art() { return 0 }
endtemplate PyramidalCell
