A multilayer cortical model to study seizure propagation across microdomains (Basu et al. 2015)

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Accession:206238
A realistic neural network was used to simulate a region of neocortex to obtain extracellular LFPs from ‘virtual micro-electrodes’ and produce test data for comparison with multisite microelectrode recordings. A model was implemented in the GENESIS neurosimulator. A simulated region of cortex was represented by layers 2/3, 5/6 (interneurons and pyramidal cells) and layer 4 stelate cells, spaced at 25 µm in each horizontal direction. Pyramidal cells received AMPA and NMDA inputs from neighboring cells at the basal and apical dendrites. The LFP data was generated by simulating 16-site electrode array with the help of ‘efield’ objects arranged at the predetermined positions with respect to the surface of the simulated network. The LFP for the model is derived from a weighted average of the current sources summed over all cellular compartments. Cell models were taken from from Traub et al. (2005) J Neurophysiol 93(4):2194-232.
References:
1 . Basu I, Kudela P, Korzeniewska A, Franaszczuk PJ, Anderson WS (2015) A study of the dynamics of seizure propagation across micro domains in the vicinity of the seizure onset zone. J Neural Eng 12:046016 [PubMed]
2 . Basu I, Kudela P, Anderson WS (2014) Determination of seizure propagation across microdomains using spectral measures of causality. Conf Proc IEEE Eng Med Biol Soc 2014:6349-52 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Neocortex;
Cell Type(s): Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex U1 L5B pyramidal pyramidal tract GLU cell; Thalamus reticular nucleus GABA cell; Neocortex spiking low threshold (LTS) neuron; Neocortex spiking regular (RS) neuron; Neocortex layer 2-3 interneuron; Neocortex layer 5 interneuron;
Channel(s): I Na,p; I Na,t; I K; I A; I M; I h; I K,Ca; I A, slow; I L high threshold; I T low threshold; I Calcium;
Gap Junctions: Gap junctions;
Receptor(s): AMPA; GabaA; NMDA;
Gene(s):
Transmitter(s): Glutamate; Gaba; Amino Acids;
Simulation Environment: GENESIS;
Model Concept(s): Activity Patterns; Epilepsy;
Implementer(s): Anderson, WS ; Kudela, Pawel ;
Search NeuronDB for information about:  Thalamus reticular nucleus GABA cell; Neocortex U1 L5B pyramidal pyramidal tract GLU cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; GabaA; AMPA; NMDA; I Na,p; I Na,t; I L high threshold; I T low threshold; I A; I K; I M; I h; I K,Ca; I Calcium; I A, slow; Amino Acids; Gaba; Glutamate;
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BasuEtAl2015
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ModelDescription.pdf
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P6RSd_P6RSc.g
P6RSd_P6RSd.g
P6RSd_P6RSd_Gap.g
P6RSd_raninput.g
P6RSd_ST4RS.g
P6RSd_synapsedefs.g
P6RSd_TCR.g
P6RSdcell3Dpk.p
P6RSdchanpk.g
P6RSdprotodefs.g
P6RSsyncond.g
pgenesis_command
protodefs.g
protospikeB23FS.g
protospikeB5FS.g
protospikeC23FS.g
protospikeC5FS.g
protospikeI23LTS.g
protospikeI5LTS.g
protospikenRT.g
protospikeP23FRBa.g
protospikeP23RSa.g
protospikeP23RSb.g
protospikeP23RSc.g
protospikeP23RSd.g
protospikeP5IBa.g
protospikeP5IBb.g
protospikeP5IBc.g
protospikeP5IBd.g
protospikeP5RSa.g
protospikeP6RSa.g
protospikeP6RSb.g
protospikeP6RSc.g
protospikeP6RSd.g
protospikeST4RS.g
protospikeTCR.g
randominputdefs.g
spikedefs.g
ST4RS.g
ST4RS_B23FS.g
ST4RS_B5FS.g
ST4RS_C23FS.g
ST4RS_C5FS.g
ST4RS_I23LTS.g
ST4RS_I5LTS.g
ST4RS_P23FRBa.g
ST4RS_P23RSa.g
ST4RS_P23RSb.g
ST4RS_P23RSc.g
ST4RS_P23RSd.g
ST4RS_P5IBa.g
ST4RS_P5IBb.g
ST4RS_P5IBc.g
ST4RS_P5IBd.g
ST4RS_P5RSa.g
ST4RS_P6RSa.g
ST4RS_P6RSb.g
ST4RS_P6RSc.g
ST4RS_P6RSd.g
ST4RS_raninput.g
ST4RS_ST4RS.g
ST4RS_ST4RS_Gap.g
ST4RS_synapsedefs.g
ST4RScell3Dpk.p
ST4RSchanpk.g
ST4RSprotodefs.g
ST4RSsyncond.g
synapticdelays.g *
synapticprobsTraub.g
synchansB23FS.g *
synchansB5FS.g *
synchansC23FS.g *
synchansC5FS.g *
synchansI23LTS.g *
synchansI5LTS.g *
synchansnRT.g *
synchansP23FRBa.g *
synchansP23RSa.g *
synchansP23RSb.g *
synchansP23RSc.g *
synchansP23RSd.g *
synchansP5IBa.g *
synchansP5IBb.g *
synchansP5IBc.g *
synchansP5IBd.g *
synchansP5RSa.g *
synchansP6RSa.g *
synchansP6RSb.g *
synchansP6RSc.g *
synchansP6RSd.g *
synchansSPIKEs.g *
synchansSPIKEs_base.g
synchansST4RS.g
synchansTCR.g *
syncond.g
syncond2.g
TCR.g
TCR_B23FS.g
TCR_B5FS.g
TCR_C23FS.g
TCR_C5FS.g
TCR_nRT.g
TCR_P23FRBa.g
TCR_P23RSa.g
TCR_P23RSb.g
TCR_P23RSc.g
TCR_P23RSd.g
TCR_P5IBa.g
TCR_P5IBb.g
TCR_P5IBc.g
TCR_P5IBd.g
TCR_P5RSa.g
TCR_P6RSa.g
TCR_P6RSb.g
TCR_P6RSc.g
TCR_P6RSd.g
TCR_raninput.g
TCR_ST4RS.g
TCR_synapsedefs.g
TCRcellpk.p
TCRchanpk.g
TCRprotodefs.g
TCRsyncond.g
                            
// P6RSacell3D.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
*absolute
*relative
*cartesian
*asymmetric

*set_global              RM     0.3333333
*set_global              EREST_ACT      -0.07
*set_compt_param     ELEAK      -0.0594


//              Specifying constants
*set_compt_param        RM      5.0  //0.33333
*set_compt_param        RA      2.50  //0.3
*set_compt_param        CM      0.009 //0.01
*set_compt_param        ELEAK   -0.0666 // -0.068


//SOMA *************************************************************
// For the soma, use the leakage potential (-0.07 + 0.0106) for Em
//*set_compt_param     ELEAK    -0.0594
// Actually, after Traub et al. J Neurophys 2003;89:909-921, will maintain
soma  none   0  0  15  16     Ca_s14 -2.58626798e15    NaF14       2000   \
                              NaP14        0.8         KDR14       1700   \
                              KA14        1190         K214           1.0 \
                              KM14        42           CaL14          1.0 \
                              CaH14        2.0         KCs14        150   \
                              AR14         2.5         KAHPs14        2.0  
*set_compt_param     RA 2.5
*set_compt_param     CM 0.018
*set_compt_param     ELEAK -0.0666
*set_compt_param     RM 2.5


//APICAL DENDRITE COMPARTMENTS ***************************************
// apdend1 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend1  soma  0  0  50 3       Ca_d14 -1.65521236e17     NaF14       3000   \
                                NaP14        1.2          KDR14       2400   \
                                KA14      2380            K214           2   \
                                KM14        84            CaL14          2   \
                                CaH14        4            KCd14        300   \
                                AR14         5          KAHPd14        4.0

// apdend2 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend2  apdend1  0  0  50   2.8    Ca_d14 -1.88092836e17 NaF14   1500  \
                                    NaP14        0.6     KDR14   1500  \
                                    KA14        272       K214      2  \
                                    KM14        84       CaL14     4  \
                                    CaH14        2       KCd14   300  \
                                    AR14         5     KAHPd14   4.0


// apdend3 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend3  apdend2  0  0  50   2.8   Ca_d14 -2.22818969E17  NaF14   100  \
                                    NaP14       0.04     KDR14    0  \
                                    KA14      272        K214     2  \
                                    KM14       84        CaL14    2  \
                                    CaH14       4        KCd14    0  \
                                    AR14        5        KAHPd14  4.0


// apdend4 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend4  apdend3  0  0  50   2.6    Ca_d14 -2.22818969e17    NaF14          100  \
                                    NaP14       0.04         KDR14           0  \
                                    KA14      272            K214            2  \
                                    KM14       84            CaL14           2  \
                                    CaH14       4            KCd14           0  \
                                    AR14        5            KAHPd14         4.0

// apdend5 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend5  apdend4  0  0  50   2.40  Ca_d14    -2.41385133e17  NaF14	    100 \
                                    NaP14       0.04         KDR14           0  \
                                    KA14      272            K214            2  \
                                    KM14       84            CaL14           2  \
                                    CaH14       4            KCd14           0  \
                                    AR14        5            KAHPd14         4.0

// apdend6 Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend6  apdend5  0  0  50   2      Ca_d14 -3.31042301e17    NaF14          100  \
                                    NaP14       0.04         KDR14           0  \
                                    KA14      272            K214            2  \
                                    KM14       84            CaL14           2  \
                                    CaH14       40           KCd14           0  \
                                    AR14        5            KAHPd14         4.0

// apdend7  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend7  apdend6  0  0  50   1.8    Ca_d14 -3.67824744e17    NaF14          100  \
                                    NaP14       0.04         KDR14           0  \
                                    KA14      272            K214            2  \
                                    KM14       84            CaL14           2  \
                                    CaH14       40           KCd14           0  \
                                    AR14        5            KAHPd14         4.0

// apdend8  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend8  apdend7  0  0  50   1.6    Ca_d14 -4.1380285e17     NaF14          100  \
                                    NaP14         0.04       KDR14           0  \
                                    KA14        272          K214            2  \
                                    KM14         84          CaL14           2  \
                                    CaH14         40         KCd14           0  \
                                    AR14          5        KAHPd14         4.0

// apdend9  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend9  apdend8  0  0  50   1.4    Ca_d14 -5.32033542e17    NaF14          100   \
                                    NaP14       0.04         KDR14           0   \
                                    KA14      272            K214            2   \
                                    KM14       84            CaL14           2   \
                                    CaH14       40           KCd14           0   \
                                    AR14        5            KAHPd14         4.0

// apdend10  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apdend10  apdend9  0  0  40   1.2   Ca_d14  -6.8967142e17    NaF14          100  \
                                    NaP14       0.04         KDR14           0  \
                                    KA14      272            K214            2  \
                                    KM14       84            CaL14           2  \
                                    CaH14       40           KCd14           0  \
                                    AR14        5            KAHPd14         4.0

//APICAL OBLIQUE DENDRITE COMPARTMENTS ***************************************

// apobdistRa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistRa  apdend3  42.4  42.4 0  1.24      Ca_d14 -6.1180627e17     NaF14      1500  \
                                             NaP14        0.6         KDR14      1500  \
                                             KA14       272           K214         2  \
                                             KM14        84           CaL14        2  \
                                             CaH14        4           KCd14      300  \
                                             AR14         5           KAHPd14      4.0

// apobdistRb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistRb  apobdistRa  42.4  42.4 0   1.24   Ca_d14    -6.1180971e17  NaF14       100  \
                                              NaP14       0.04         KDR14        0  \
                                              KA14      272            K214         2  \
                                              KM14       84            CaL14        2  \
                                              CaH14       4            KCd14        0  \
                                              AR14        5          KAHPd14      4.0

// apobdistRc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistRc  apobdistRb  42.4  42.4 0   1.24    Ca_d14 -6.1180994e17     NaF14       100  \
                                              NaP14       0.04         KDR14        0  \
                                              KA14      272            K214         2  \
                                              KM14       84            CaL14        2  \
                                              CaH14       4            KCd14        0  \
                                              AR14        5            KAHPd14      4.0

// apobdistLa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistLa  apdend3  -42.4  -42.4 0   1.24      Ca_d14 -6.1180627e17     NaF14      1500  \
                                               NaP14        0.6         KDR14      1500  \
                                               KA14       272           K214         2  \
                                               KM14        84           CaL14        2  \
                                               CaH14        4           KCd14      300  \
                                               AR14         5         KAHPd14      4.0

// apobdistLb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistLb  apobdistLa  -42.4  -42.4 0   1.24    Ca_d14 -6.11809714e17    NaF14       100  \
                                                NaP14       0.04         KDR14        0  \
                                                KA14      272            K214         2  \
                                                KM14       84            CaL14        2  \
                                                CaH14       4            KCd14        0  \
                                                AR14        5            KAHPd14      4.0

// apobdistLc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobdistLc  apobdistLb  -42.4  -42.4 0   1.24    Ca_d14 -6.1180994e17     NaF14       100  \
                                                NaP14       0.04         KDR14        0  \
                                                KA14      272            K214         2  \
                                                KM14       84            CaL14        2  \
                                                CaH14       4            KCd14        0  \
                                                AR14        5            KAHPd14      4.0

// apobmidRa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidRa  apdend2  42.4  -42.4  0   1.24      Ca_d14 -6.1180483E17     NaF14      1500  \
                                              NaP14        0.6         KDR14      1500  \
                                              KA14       272           K214         2  \
                                              KM14        84           CaL14        2  \
                                              CaH14        4           KCd14      300  \
                                              AR14         5           KAHPd14      4.0

// apobmidRb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidRb  apobmidRa  42.4  -42.4  0   1.24     Ca_d14 -6.118106E17      NaF14       100  \
                                               NaP14       0.04         KDR14        0  \
                                               KA14      272            K214         2  \
                                               KM14       84            CaL14        2  \
                                               CaH14       4            KCd14        0  \
                                               AR14        5            KAHPd14      4.0

// apobmidRc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidRc  apobmidRb  42.4  -42.4  0   1.24     Ca_d14 -6.1179686E17     NaF14       100  \
                                               NaP14       0.04         KDR14        0  \
                                               KA14      272            K214         2  \
                                               KM14       84            CaL14        2  \
                                               CaH14       4            KCd14        0  \
                                               AR14        5            KAHPd14      4.0

// apobmidLa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidLa  apdend2  -42.4  42.4  0   1.24     Ca_d14 -6.1180483E17     NaF14      1500  \
                                              NaP14        0.6         KDR14      1500  \
                                              KA14       272           K214         2  \
                                              KM14        84           CaL14        2  \
                                              CaH14        4           KCd14      300  \
                                              AR14         5          KAHPd14      4.0

// apobmidLb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidLb  apobmidLa  -42.4  42.4  0   1.24    Ca_d14  -6.118106E17      NaF14       100  \
                                               NaP14       0.04         KDR14        0  \
                                               KA14      272            K214         2  \
                                               KM14       84            CaL14        2  \
                                               CaH14       4            KCd14        0  \
                                               AR14        5            KAHPd14      4.0

// apobmidLc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobmidLc  apobmidLb  -42.4  42.4  0   1.24    Ca_d14 -6.1179686E17      NaF14       100  \
                                               NaP14       0.04         KDR14        0  \
                                               KA14      272            K214         2  \
                                               KM14       84            CaL14        2  \
                                               CaH14       4            KCd14        0  \
                                               AR14        5            KAHPd14      4.0

// apobproxRa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxRa  apdend1  42.4  42.4  0   1.24    Ca_d14 -6.1180297E17     NaF14      1500  \
                                             NaP14        0.6         KDR14      1500  \
                                             KA14       272           K214         2  \
                                             KM14        84           CaL14        2  \
                                             CaH14        4           KCd14      300  \
                                             AR14         5           KAHPd14      4.0

// apobproxRb Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxRb  apobproxRa  42.4  42.4  0 1.24    Ca_d14 -6.118106E17      NaF14       100  \
                                              NaP14       0.04         KDR14        0  \
                                              KA14      272            K214         2  \
                                              KM14       84            CaL14        2  \
                                              CaH14       4            KCd14        0  \
                                              AR14        5           KAHPd14      4.0

// apobproxRc Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxRc  apobproxRb  42.4  42.4  0 1.24    Ca_d14 -6.1181232E17     NaF14       100  \
                                              NaP14       0.04         KDR14        0  \
                                              KA14      272            K214         2  \
                                              KM14       84            CaL14        2  \
                                              CaH14       4            KCd14        0  \
                                              AR14        5            KAHPd14      4.0

// apobproxLa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxLa  apdend1  -42.4  -42.4  0   1.24    Ca_d14 -6.1180297E17     NaF14      1500 \
                                               NaP14        0.6         KDR14      1500 \
                                               KA14       272           K214         2  \
                                               KM14        84           CaL14        2  \
                                               CaH14        4           KCd14      300  \
                                               AR14         5          KAHPd14      4.0

// apobproxLb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxLb  apobproxLa  -42.4  -42.4  0  1.24   Ca_d14 -6.118106E17      NaF14       100 \
                                                NaP14       0.04         KDR14        0  \
                                                KA14      272            K214         2  \
                                                KM14       84            CaL14        2  \
                                                CaH14       4            KCd14        0  \
                                                AR14        5          KAHPd14        4.0

// apobproxLc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
apobproxLc  apobproxLb  -42.4  -42.4  0  1.24   Ca_d14 -6.118106E17      NaF14       100 \
                                                NaP14       0.04         KDR14        0  \
                                                KA14      272            K214         2  \
                                                KM14       84            CaL14        2  \
                                                CaH14       4            KCd14        0  \
                                                AR14        5          KAHPd14      4.0

*set_compt_param     RA 2.5
*set_compt_param     CM 0.018
*set_compt_param     ELEAK -0.0666
*set_compt_param     RM 2.5


//BASAL DENDRITE COMPARTMENTS ************************************************
// basalLsupera  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLsupera  soma  -26.8  -46.4  -27.2  1.7    Ca_d14 -4.05689382E17  NaF14        1500  \
                                                NaP14        0.6     KDR14        1500  \
                                                KA14       272       K214           2  \
                                                KM14        84       CaL14          2  \
                                                CaH14        4       KCd14        300  \
                                                AR14         5       KAHPd14        4.0

// basalLsuperb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLsuperb  basalLsupera  -26.8  -46.4 -27.2  1.7     Ca_d14 -4.05691135E17  NaF14        100  \
                                                        NaP14        0.04    KDR14          0  \
                                                        KA14       272       K214           2  \
                                                        KM14        84       CaL14          2  \
                                                        CaH14        4       KCd14          0  \
                                                        AR14         5       KAHPd14        4.0

// basalLsuperc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLsuperc  basalLsuperb  -26.8  -46.4 -27.2  1.7     Ca_d14 -4.05691135E17 NaF14         100  \
                                                        NaP14        0.04    KDR14          0  \
                                                        KA14       136       K214           2  \
                                                        KM14        84       CaL14          2  \
                                                        CaH14        4       KCd14          0  \
                                                        AR14         5       KAHPd14        4.0

// basalLmida  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLmida  soma  -19.3  33.4  -46.0  1.7      Ca_d14 -4.05689382E17  NaF14        1500  \
                                                NaP14        0.6     KDR14        1500  \
                                                KA14       272       K214           2  \
                                                KM14        84       CaL14          2  \
                                                CaH14        4       KCd14        300  \
                                                AR14         5       KAHPd14        4.0

// basalLmidb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLmidb  basalLmida  -19.3  33.4 -46.0  1.7         Ca_d14 -4.05689382E17 NaF14         100  \
                                                       NaP14        0.04    KDR14          0  \
                                                       KA14       272       K214           2  \
                                                       KM14        84       CaL14          2  \
                                                       CaH14        4       KCd14          0  \
                                                       AR14         5       KAHPd14        4.0

// basalLmidc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalLmidc  basalLmidb  -19.3  33.4 -46.0  1.7         Ca_d14    -4.05689382E17  NaF14     100  \
                                                       NaP14        0.04    KDR14          0  \
                                                       KA14       272       K214           2  \
                                                       KM14        84       CaL14          2  \
                                                       CaH14        4       KCd14          0  \
                                                       AR14         5       KAHPd14        4.0

// basalRsupera  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRsupera  soma   26.8  46.4  -27.2  1.7    Ca_d14    -4.05689382E17  NaF14        1500  \
                                               NaP14        0.6     KDR14        1500  \
                                               KA14       272       K214           2  \
                                               KM14        84       CaL14          2  \
                                               CaH14        4       KCd14        200  \
                                               AR14         5     KAHPd14        4.0

// basalRsuperb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRsuperb  basalRsupera   26.8  46.4 -27.2  1.7     Ca_d14 -4.05689382E17 NaF14         100  \
                                                       NaP14        0.04    KDR14          0  \
                                                       KA14       272       K214           2  \
                                                       KM14        84       CaL14          2  \
                                                       CaH14        4       KCd14          0  \
                                                       AR14         5       KAHPd14        4.0

// basalRsuperc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRsuperc  basalRsuperb   26.8  46.4 -27.2  1.7     Ca_d14 -4.05689382E17 NaF14         100  \
                                                       NaP14        0.04    KDR14          0  \
                                                       KA14       272       K214           2  \
                                                       KM14        84       CaL14          2  \
                                                       CaH14        4       KCd14          0  \
                                                       AR14         5       KAHPd14        4.0

// basalRmida  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRmida  soma   19.3  -33.4  -46.0  1.7      Ca_d14  -4.05689382E17   NaF14    1500  \
                                                NaP14        0.6         KDR14    1500  \
                                                KA14       272           K214       2  \
                                                KM14        84           CaL14      2  \
                                                CaH14        4           KCd14    300  \
                                                AR14         5           KAHPd14    4.0

// basalRmidb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRmidb  basalRmida   19.3  -33.4 -46.0  1.7     Ca_d14 -4.05689382E17     NaF14     100  \
                                                    NaP14        0.04        KDR14      0  \
                                                    KA14       272           K214       2  \
                                                    KM14        84           CaL14      2  \
                                                    CaH14        4           KCd14      0  \
                                                    AR14         5           KAHPd14    4.0

// basalRmidc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basalRmidc  basalRmidb   19.3  -33.4 -46.0  1.7     Ca_d14 -4.05689382E17     NaF14     100  \
                                                    NaP14        0.04        KDR14      0  \
                                                    KA14       272           K214       2  \
                                                    KM14        84           CaL14      2  \
                                                    CaH14        4           KCd14      0  \
                                                    AR14         5           KAHPd14    4.0

// basaldeepa  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basaldeepa  soma  0  0  -60.0  1.7          Ca_d14 -4.05689382E17    NaF14    1500  \
                                            NaP14        0.6         KDR14    1500  \
                                            KA14       272           K214       2  \
                                            KM14        84           CaL14      2  \
                                            CaH14        4           KCd14    300  \
                                            AR14         5           KAHPd14    4.0

// basaldeepb  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basaldeepb  basaldeepa  0  0 -60.0  1.7             Ca_d14 -4.05689382E17     NaF14     100  \
                                                    NaP14        0.04        KDR14      0  \
                                                    KA14       272           K214       2  \
                                                    KM14        84           CaL14      2  \
                                                    CaH14        4           KCd14      0  \
                                                    AR14         5           KAHPd14    4.0

// basaldeepc  Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
basaldeepc  basaldeepb  0  0 -60.0  1.7             Ca_d14 -4.05689382E17     NaF14     100  \
                                                    NaP14        0.04        KDR14      0  \
                                                    KA14       272           K214       2  \
                                                    KM14        84           CaL14      2  \
                                                    CaH14        4           KCd14      0  \
                                                    AR14         5           KAHPd14    4.0


//              Specifying constants for axonal compartment RMCM=0.0024 (0.0009)
*set_compt_param        RM      0.10   //(0.1)
*set_compt_param        RA      1.00   //(1.00)
*set_compt_param        CM      0.009  //(0.009)(0.024)
*set_compt_param        ELEAK   -0.0666

//AXONAL COMPARTMENTS ***************************************
// axona Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axona  soma  0  0 -25  1.8      NaF14       4500   \
                                KDR14       4500   \
                                KA14          40       K214               1

// axonb Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axonb  axona  0  0 -50  1.8     NaF14       4500   \
                                KDR14       4500   \
                                KA14          40       K214               1

// axonLa Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axonLa  axonb  -8.7  0 -49.2  1.8    NaF14       4500   \
                                     KDR14       4500   \
                                     KA14          40  K214               1

// axonLb Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axonLb  axonLa  -8.7  0 -49.2  1.8   NaF14       4500   \
                                     KDR14       4500   \
                                     KA14          40  K214               1

// axonRa Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axonRa  axonb   8.7  0 -49.2  1.8    NaF14       4500   \
                                     KDR14       4500   \
                                     KA14          40  K214               1

// axonRb Fig A6 Traub et al. J. Neurophysiol 2005;93:2194-2232
// Differs from Traub et al., in that axon is vertical
axonRb  axonRa   8.7  0 -49.2  1.8   NaF14       4500   \
                                     KDR14       4500   \
                                     KA14          40  K214               1


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