// B5FScell3Dpk.p
// Format of file :
// x,y,z,dia are in microns, all other units are SI (Meter Kilogram Sec Amp)
// In polar mode 'r' is in microns, theta and phi in degrees
// Control line options start with a '*'
// The format for each compartment parameter line is :
//name parent r theta phi d ch dens ...
//in polar mode, and in cartesian mode :
//name parent x y z d ch dens ...
// For channels, "dens" = maximum conductance per unit area of compartment
// For spike elements, "dens" is the spike threshold
// Coordinate mode
*relative
*cartesian
*asymmetric
// Specifying constants
*set_compt_param RM 2.50 //0.33333 (2.50)
*set_compt_param RA 2.00 //0.3 (2.00)
*set_compt_param CM 0.01 //0.01 (0.01)
*set_compt_param EREST_ACT -0.07 //
*set_compt_param ELEAK -0.0666 // -0.0735
//SOMA *************************************************************
// For the soma, use the leakage potential (-0.07 + 0.0106) for Em
//*set_compt_param ELEAK -0.0594
// Actually, after Cunningham et al. PNAS 2004;101:7152-7157, will maintain
// leakage potential at ELEAK -0.07
soma none 0 0 20 15.0 Ca_s10 -5.5173713E16 NaF10 900 \
KDR10 1000 KA10 1 CaH10 1 KCs10 1
// KCs10 250 KA10 10
//*set_compt_param ELEAK -0.075
*set_compt_param RM 2.50 //0.33333 (2.50)
*set_compt_param RA 2.00 //0.3 (2.00)
*set_compt_param CM 0.01 //0.01 (0.01)
//PROXIMAL DENDRITE COMPARTMENTS ***************************************
// proxdendN Cunningham et al., PNAS 2004;101:7152-7157
proxdendN soma 0 0 40 2.12 Ca_d10 -3.90380092E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// proxdendE Cunningham et al., PNAS 2004;101:7152-7157
proxdendE soma 40 0 0 2.12 Ca_d10 -3.90380092E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// proxdendS Cunningham et al., PNAS 2004;101:7152-7157
proxdendS soma 0 0 -40 2.12 Ca_d10 -3.90380092E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// proxdendW Cunningham et al., PNAS 2004;101:7152-7157
proxdendW soma -40 0 0 2.12 Ca_d10 -3.90380092E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
*set_compt_param RM 2.50 //0.33333 (2.50)
*set_compt_param RA 2.00 //0.3 (2.00)
*set_compt_param CM 0.01 //0.01 (0.01)
//*set_compt_param ELEAK -0.075
//North DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendNlonga Cunningham et al., PNAS 2004;101:7152-7157
distdendNlonga proxdendN -6.84 11.8 37.6 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendNlongb Cunningham et al., PNAS 2004;101:7152-7157
distdendNlongb distdendNlonga -6.84 11.8 37.6 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNlongc Cunningham et al., PNAS 2004;101:7152-7157
distdendNlongc distdendNlongb -6.84 11.8 37.6 0.84 Ca_d10 -9.876647E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNlongd Cunningham et al., PNAS 2004;101:7152-7157
distdendNlongd distdendNlongc -6.84 11.8 37.6 0.84 Ca_d10 -9.8765206E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNlonge Cunningham et al., PNAS 2004;101:7152-7157
distdendNlonge distdendNlongd -6.84 11.8 37.6 0.84 Ca_d10 -9.8767418E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNlongf Cunningham et al., PNAS 2004;101:7152-7157
distdendNlongf distdendNlonge -6.84 11.8 37.6 0.84 Ca_d10 -9.876737E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNlongg Cunningham et al., PNAS 2004;101:7152-7157
distdendNlongg distdendNlongf -6.84 11.8 37.6 0.84 Ca_d10 -9.8760354E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNmida Cunningham et al., PNAS 2004;101:7152-7157
distdendNmida proxdendN 6.84 -11.8 37.6 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendNmidb Cunningham et al., PNAS 2004;101:7152-7157
distdendNmidb distdendNmida 6.84 -11.8 37.6 1.34 Ca_d10 -9.8765082E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNmidc Cunningham et al., PNAS 2004;101:7152-7157
distdendNmidc distdendNmidb 6.84 -11.8 37.6 1.34 Ca_d10 -6.2070847E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNshorta Cunningham et al., PNAS 2004;101:7152-7157
distdendNshorta distdendNlonga 6.84 -11.8 37.6 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendNshortb Cunningham et al., PNAS 2004;101:7152-7157
distdendNshortb distdendNshorta 6.84 -11.8 37.6 0.84 Ca_d10 -9.8768566E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
//East DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendElonga Cunningham et al., PNAS 2004;101:7152-7157
distdendElonga proxdendE 32.5 18.8 13.68 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendElongb Cunningham et al., PNAS 2004;101:7152-7157
distdendElongb distdendElonga 32.5 18.8 13.68 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendElongc Cunningham et al., PNAS 2004;101:7152-7157
distdendElongc distdendElongb 32.5 18.8 13.68 0.84 Ca_d10 -9.876647E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendElongd Cunningham et al., PNAS 2004;101:7152-7157
distdendElongd distdendElongc 32.5 18.8 13.68 0.84 Ca_d10 -9.8765206E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendElonge Cunningham et al., PNAS 2004;101:7152-7157
distdendElonge distdendElongd 32.5 18.8 13.68 0.84 Ca_d10 -9.8767418E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendElongf Cunningham et al., PNAS 2004;101:7152-7157
distdendElongf distdendElonge 32.5 18.8 13.68 0.84 Ca_d10 -9.876737E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendElongg Cunningham et al., PNAS 2004;101:7152-7157
distdendElongg distdendElongf 32.5 18.8 13.68 0.84 Ca_d10 -9.8760354E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendEmida Cunningham et al., PNAS 2004;101:7152-7157
distdendEmida proxdendE 32.5 18.8 -13.68 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendEmidb Cunningham et al., PNAS 2004;101:7152-7157
distdendEmidb distdendEmida 32.5 18.8 -13.68 0.84 Ca_d10 -9.8765082E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendEmidc Cunningham et al., PNAS 2004;101:7152-7157
distdendEmidc distdendEmidb 32.5 18.8 -13.68 0.84 Ca_d10 -6.2070847E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendEshorta Cunningham et al., PNAS 2004;101:7152-7157
distdendEshorta distdendElonga 32.5 18.8 -13.68 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendEshortb Cunningham et al., PNAS 2004;101:7152-7157
distdendEshortb distdendEshorta 32.5 18.8 -13.68 0.84 Ca_d10 -9.8768566E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
//South DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendSlonga Cunningham et al., PNAS 2004;101:7152-7157
distdendSlonga proxdendS 6.84 -11.8 -37.6 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendSlongb Cunningham et al., PNAS 2004;101:7152-7157
distdendSlongb distdendSlonga 6.84 -11.8 -37.6 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSlongc Cunningham et al., PNAS 2004;101:7152-7157
distdendSlongc distdendSlongb 6.84 -11.8 -37.6 0.84 Ca_d10 -9.876647E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSlongd Cunningham et al., PNAS 2004;101:7152-7157
distdendSlongd distdendSlongc 6.84 -11.8 -37.6 0.84 Ca_d10 -9.8765206E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSlonge Cunningham et al., PNAS 2004;101:7152-7157
distdendSlonge distdendSlongd 6.84 -11.8 -37.6 0.84 Ca_d10 -9.8767418E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSlongf Cunningham et al., PNAS 2004;101:7152-7157
distdendSlongf distdendSlonge 6.84 -11.8 -37.6 0.84 Ca_d10 -9.876737E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSlongg Cunningham et al., PNAS 2004;101:7152-7157
distdendSlongg distdendSlongf 6.84 -11.8 -37.6 0.84 Ca_d10 -9.8760354E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSmida Cunningham et al., PNAS 2004;101:7152-7157
distdendSmida proxdendS -6.84 11.8 -37.6 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendSmidb Cunningham et al., PNAS 2004;101:7152-7157
distdendSmidb distdendSmida -6.84 11.8 -37.6 0.84 Ca_d10 -9.8765082E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSmidc Cunningham et al., PNAS 2004;101:7152-7157
distdendSmidc distdendSmidb -6.84 11.8 -37.6 0.84 Ca_d10 -6.2070847E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSshorta Cunningham et al., PNAS 2004;101:7152-7157
distdendSshorta distdendSlonga -6.84 11.8 -37.6 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendSshortb Cunningham et al., PNAS 2004;101:7152-7157
distdendSshortb distdendSshorta -6.84 11.8 -37.6 0.84 Ca_d10 -9.8768566E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
//West DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendWlonga Cunningham et al., PNAS 2004;101:7152-7157
distdendWlonga proxdendW -32.5 -18.8 13.68 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendWlongb Cunningham et al., PNAS 2004;101:7152-7157
distdendWlongb distdendWlonga -32.5 -18.8 13.68 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWlongc Cunningham et al., PNAS 2004;101:7152-7157
distdendWlongc distdendWlongb -32.5 -18.8 13.68 0.84 Ca_d10 -9.876647E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWlongd Cunningham et al., PNAS 2004;101:7152-7157
distdendWlongd distdendWlongc -32.5 -18.8 13.68 0.84 Ca_d10 -9.8765206E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWlonge Cunningham et al., PNAS 2004;101:7152-7157
distdendWlonge distdendWlongd -32.5 -18.8 13.68 0.84 Ca_d10 -9.8767418E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWlongf Cunningham et al., PNAS 2004;101:7152-7157
distdendWlongf distdendWlonge -32.5 -18.8 13.68 0.84 Ca_d10 -9.876737E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWlongg Cunningham et al., PNAS 2004;101:7152-7157
distdendWlongg distdendWlongf -32.5 -18.8 13.68 0.84 Ca_d10 -9.8760354E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWmida Cunningham et al., PNAS 2004;101:7152-7157
distdendWmida proxdendW -32.5 -18.8 -13.68 1.34 Ca_d10 -6.2070579E17 NaF10 600 \
KDR10 1000 \
KA10 10 \
CaH10 1 KCd10 250
// distdendWmidb Cunningham et al., PNAS 2004;101:7152-7157
distdendWmidb distdendWmida -32.5 -18.8 -13.68 0.84 Ca_d10 -9.8765082E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWmidc Cunningham et al., PNAS 2004;101:7152-7157
distdendWmidc distdendWmidb -32.5 -18.8 -13.68 0.84 Ca_d10 -6.2070847E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWshorta Cunningham et al., PNAS 2004;101:7152-7157
distdendWshorta distdendWlonga -32.5 -18.8 -13.68 0.84 Ca_d10 -9.8766113E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// distdendWshortb Cunningham et al., PNAS 2004;101:7152-7157
distdendWshortb distdendWshorta -32.5 -18.8 -13.68 0.84 Ca_d10 -9.8768566E17 NaF10 100 \
KDR10 100 \
KA10 10 \
CaH10 2 KCd10 250
// Specifying constants for axonal compartment
*set_compt_param RM 0.1 // (0.1)
*set_compt_param RA 1.0 // (1.0)
*set_compt_param CM 0.01 // (0.01) RC = 0.001
*set_compt_param ELEAK -0.0666
// axona Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axona soma 0 0 -25 1.4 NaF10 4000 \
KDR10 4000 \
KA10 10
// axonb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonb axona 0 0 -50 1.2 NaF10 4000 \
KDR10 4000 \
KA10 10
// axonLa Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonLa axonb -8.7 0 -49.2 1.0 NaF10 4000 \
KDR10 4000 \
KA10 10
// axonLb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonLb axonLa -8.7 0 -49.2 1.0 NaF10 4000 \
KDR10 4000 \
KA10 10
// axonRa Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonRa axonb 8.7 0 -49.2 1.0 NaF10 4000 \
KDR10 4000 \
KA10 10
// axonRb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonRb axonRa 8.7 0 -49.2 1.0 NaF10 4000 \
KDR10 4000 \
KA10 10