MC_def.hoc

// Mitral cell model template

begintemplate Mitral
public soma, prim, dend, tuft, all
public AMPA, GABAA, spiketimes, dendspike, tuftspike, spikecount, spikecount2, spikecount3
create soma, prim, dend, tuft
//objref real
objref AMPA, GABAA, spikecount, spikecount2, spikecount3
objref spiketimes, dendspike, tuftspike


proc celldef() {
	topol()
	subsets()
	geom()
	biophys($1)  
//	geom_nseg()
}

proc topol() { 
	connect dend(0), soma(1)
	connect prim(1), soma(0)
    connect tuft(1), prim(0)	
}


// create subsets 
objref all
proc subsets() {
        all = new SectionList()		
		soma all.append				
		prim all.append
		dend all.append
		tuft all.append
}

// The following parameters are adapted from Shen et al. JNP, 1999
proc geom() {    
	soma {  
		L    = 25
		diam = 20 
		nseg = 1
	}
	
	prim {  
		L    = 370
		diam = 3.5 	
		nseg = 5   
	}	
	
	dend {  
		L    = 500
		diam = 3.4   // 3.4 !!!
		nseg = 7   
	}	
	
	tuft {
		L    = 20  
		diam = 0.5 
		nseg = 1	    
	}

    forall {
		//nseg = 1
		//nseg = int((L/(0.1*lambda_f(100))+0.9)/2)*2 + 1
    }	
}

func lambda_f() {
  return  1e5*sqrt(diam/(4*PI*$1*Ra*cm))
}


proc biophys() { local El, RM, AMPAtau, AMPArev, GABAAtau GABAArev

RM	=  30e3  	 // ohm.cm2   Shen et al. JNP, 1999
El  = -60	// -60	!!! 
ENa =  45        
Ek  = -80      

AMPAtau	 =  10	 
AMPArev	 =   0	 
GABAAtau =  18	 
GABAArev = -70

shell_depth = 1   
spike_threshold = -10

//==========================================================

gNa_soma  = 50e-3   
gNa_dend  = 30e-3   
gNa_prim  = 20e-3   
gNa_tuft  = 20e-3   
    sh_Na = -3    // -3
	
gKdr_soma = 30e-3   
gKdr_dend = 20e-3  
gKdr_prim = 10e-3   
gKdr_tuft = 10e-3   
	
gA_soma   = 10e-3  
gA_dend   = 0e-3
gA_prim   = 0e-3
gA_tuft   = 0e-3
	Sha_A = 9.9       
	Shi_A = 5.7      

ScaleNP = 1.0   // 1.0/1.5 !!! (1.4/1.5/1.6)
ScaleKS = 1.0   // 1.0/1.3 !!! (1.2/1.2/1.3)

gNaP_soma = ScaleNP*0.2e-3  // 0.2 
gNaP_dend = ScaleNP*0.02e-3 // 0.02   
gNaP_prim = ScaleNP*0.10e-3 // 0.1   
gNaP_tuft = ScaleNP*0.10e-3 // 0.1   

gKs_soma  = ScaleKS*42e-3   // 42
gKs_dend  = ScaleKS*8e-3    // 8
gKs_prim  = ScaleKS*18e-3   // 18
gKs_tuft  = ScaleKS*18e-3   // 18	
   tau_KS = 10     // Default: 10  !!!
   kh_KS  = 1.5    // Default: 1.5 
	
gCa_soma  = 0.4e-3   
gCa_dend  = 0.05e-3  
gCa_prim  = 0.2e-3   
gCa_tuft  = 0.2e-3

gKCa_soma = 5e-3   // 5
	
spiketimes = new Vector()
dendspike  = new Vector()
tuftspike  = new Vector()

forsec all {
  Ra = 70     // ohm*cm; Shen et al. JNP, 1999  
  cm = 1.2    // uF/cm^2; Shen et al. JNP, 1999
}  


soma {
    insert pas
      e_pas  = El		
      g_pas  = 1/RM	
	
  
    insert Inic
	enic_Inic = 0
	gbar_Inic = 0.0e-3  // 0.1


    insert nafast
      gnabar_nafast  = gNa_soma  
	  sh_nafast = sh_Na
    insert kfasttab
    gkbar_kfasttab = gKdr_soma  
 
    insert kamt
      gbar_kamt = gA_soma      
	  sha_kamt  = Sha_A 
	  shi_kamt  = Shi_A	

    insert IKs
      gbar_IKs  = gKs_soma
      tauM_IKs  = tau_KS
      kh_IKs    = kh_KS

    insert INaP
      gbar_INaP = gNaP_soma 
    insert ICa
      gcabar_ICa = gCa_soma  
    insert Ikca
      gkbar_Ikca =  gKCa_soma 
    insert cad     
      depth_cad  = shell_depth
   
    spikecount = new APCount(0.5)
    spikecount.thresh = spike_threshold
    spikecount.record(spiketimes)
}

dend {
    insert pas
      e_pas 	= El
      g_pas		= 1/RM
    insert nafast
      gnabar_nafast	 = gNa_dend   
	  sh_nafast = sh_Na
    insert kfasttab
      gkbar_kfasttab = gKdr_dend  
   
    insert kamt
      gbar_kamt   = gA_dend    
	  sha_kamt  = Sha_A 
	  shi_kamt  = Shi_A	
	  
    insert IKs
      gbar_IKs  = gKs_dend
      tauM_IKs  = tau_KS
      kh_IKs    = kh_KS 

    insert INaP
      gbar_INaP   = gNaP_dend  
   
    insert ICa
      gcabar_ICa  = gCa_dend	 
    insert cad   
	  depth_cad = shell_depth  	  
   
    GABAA = new ExpSyn(0.5)
    GABAA.tau 	= GABAAtau
    GABAA.e 	= GABAArev
	
    spikecount2 = new APCount(1.0)
    spikecount2.thresh = spike_threshold
    spikecount2.record(dendspike)
}

prim {
    insert pas
      e_pas 	= El
      g_pas		= 1/RM
    insert nafast
       gnabar_nafast = gNa_prim   
	   sh_nafast = sh_Na 
    insert kfasttab
    gkbar_kfasttab	= gKdr_prim  
	
    insert kamt
      gbar_kamt = gA_prim    
	  sha_kamt  = Sha_A 
	  shi_kamt  = Shi_A	
	  
    insert IKs
      gbar_IKs  = gKs_prim  
      tauM_IKs  = tau_KS
      kh_IKs    = kh_KS

    insert INaP
      gbar_INaP   = gNaP_prim  
   
    insert ICa
      gcabar_ICa  = gCa_prim
    insert cad   
	  depth_cad = shell_depth     

}
	 

tuft  {
    insert pas
      e_pas 	= El
      g_pas		= 1/RM
  
    insert Inic
	enic_Inic = 3.2
	gbar_Inic = $1  
  
	insert nafast
       gnabar_nafast = gNa_tuft   
	   sh_nafast = sh_Na 
    insert kfasttab
    gkbar_kfasttab	= gKdr_tuft  
	
    insert kamt
      gbar_kamt = gA_tuft         
	  sha_kamt  = Sha_A 
	  shi_kamt  = Shi_A	
	  
    insert IKs
      gbar_IKs  = gKs_tuft
      tauM_IKs  = tau_KS
      kh_IKs    = kh_KS

    insert INaP
      gbar_INaP   = gNaP_tuft  
   
    insert ICa
      gcabar_ICa  = gCa_tuft
	  
    insert cad   
	  depth_cad = shell_depth    
	  
	AMPA     = new ExpSyn(0.5)
    AMPA.tau = AMPAtau
    AMPA.e 	 = AMPArev  
	
    spikecount3 = new APCount(0.5)
    spikecount3.thresh = spike_threshold
    spikecount3.record(tuftspike)	
}


forall if (ismembrane("na_ion")) {
	ena = ENa	
  }

forall if (ismembrane("k_ion")) {
	ek  = Ek	
  }

  
  
}


proc init() {
 celldef($1)
}


endtemplate Mitral