CA1 network model for place cell dynamics (Turi et al 2019)

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Accession:246546
Biophysical model of CA1 hippocampal region. The model simulates place cells/fields and explores the place cell dynamics as function of VIP+ interneurons.
Reference:
1 . Turi GF, Li W, Chavlis S, Pandi I, O’Hare J, Priestley JB, Grosmark AD, Liao Z, Ladow M, Zhang JF, Zemelman BV, Poirazi P, Losonczy A (2019) Vasoactive Intestinal Polypeptide-Expressing Interneurons in the Hippocampus Support Goal-Oriented Spatial Learning Neuron
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Hippocampus; Mouse;
Cell Type(s): Hippocampus CA1 pyramidal GLU cell; Hippocampus CA1 basket cell; Hippocampus CA1 basket cell - CCK/VIP; Hippocampus CA1 bistratified cell; Hippocampus CA1 axo-axonic cell; Hippocampus CA1 stratum oriens lacunosum-moleculare interneuron ; Hippocampal CA1 CR/VIP cell;
Channel(s): I A; I h; I K,Ca; I Calcium; I Na, leak; I K,leak; I M;
Gap Junctions:
Receptor(s): GabaA; GabaB; NMDA; AMPA;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON; Brian;
Model Concept(s): Place cell/field;
Implementer(s): Chavlis, Spyridon [schavlis at imbb.forth.gr]; Pandi, Ioanna ;
Search NeuronDB for information about:  Hippocampus CA1 pyramidal GLU cell; GabaA; GabaB; AMPA; NMDA; I A; I K,leak; I M; I h; I K,Ca; I Calcium; I Na, leak;
// Data from Saraga et al. (2003) paper
// changed morphology and some channel densities (BPG 12-1-09)
// OLM_Cell

begintemplate OLMCell
public is_art
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg
public pre_list, connect2target

public soma, dend1, dend2, axon
public all

objref pre_list

proc init() {
  topol()
  subsets()
  geom()
  biophys()
  geom_nseg()
  pre_list = new List()
  synapses()
}

create soma, dend1, dend2, axon

proc topol() { local i
  connect dend1(0), soma(1)
  connect dend2(0), soma(0)
  connect axon(0), soma(1)
  //basic_shape()
}

proc basic_shape() {
  soma  { pt3dclear() pt3dadd(0, 0, 0, 10)   pt3dadd(15, 0, 0, 10)    }
  dend1 { pt3dclear() pt3dadd(15, 0, 0, 3)   pt3dadd(90, 0, 0, 3)     }
  dend2 { pt3dclear() pt3dadd(0, 0, 0, 3)    pt3dadd(-74, 0, 0, 3)    }
  axon  { pt3dclear() pt3dadd(15, 0, 0, 1.5) pt3dadd(15, 120, 0, 1.5) }
}

objref all
proc subsets() { local i
  objref all
  all = new SectionList()
  soma all.append()
  dend1 all.append()
  dend2 all.append()
  axon all.append()
}

proc geom() {
  forsec all {  }
  soma  {  L = 20  diam = 10   }
  dend1 {  L = 250  diam = 3   }
  dend2 {  L = 250  diam = 3   }
  axon  {  L = 150  diam = 1.5 }
}

external lambda_f
proc geom_nseg() {
  forsec all { nseg = int((L/(0.1*lambda_f(100))+.9)/2)*2 + 1  }
}

proc biophys() {

  Rm = 20000*2
  //Rm = 1/5e-05      // original
  
  forsec all {
    Ra = 150
    cm = 1.6
  }

  soma {
    insert IA
    gkAbar_IA = 0.0165
    insert Ih
    gkhbar_Ih = 0.00035*0.1
    //gkhbar_Ih = 0.0005
    //gkhbar_Ih = 0.001385
    insert Ksoma
    gksoma_Ksoma = 0.0319*1.5
    insert Nasoma
    gnasoma_Nasoma = 0.0107*1.2
    gl_Nasoma = 1/Rm
    el_Nasoma = -67     
  }

  dend1 {
    insert IA
    gkAbar_IA = 0.004*1.2
    //gkAbar_IA = 0.013
    //insert Ih
    //gkhbar_Ih = 0.001385
    insert Kdend
    gkdend_Kdend = 20*0.023
    insert Nadend
    gnadend_Nadend = 2*0.0117
    gl_Nadend = 1/Rm
    el_Nadend = -65
  }

  dend2 {
    insert IA
    gkAbar_IA = 0.004*1.2
    //gkAbar_IA = 0.013
    //insert Ih
    //gkhbar_Ih = 0.001385
    insert Kdend
    gkdend_Kdend = 20*0.023
    insert Nadend
    gnadend_Nadend = 2*0.0117
    gl_Nadend = 1/Rm
    el_Nadend = -65
  }

  axon {
    insert Kaxon
    gkaxon_Kaxon = 0.05104
    insert Naaxon
    gnaaxon_Naaxon = 0.01712
    gl_Naaxon = 1/Rm
    el_Naaxon = -67
    }
}

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_PC() {
  /* E0 */   dend1 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)     // AMPA     PC
  syn_.tau1 = 0.3
  syn_.tau2 = 0.6
  syn_.e    = 0
  /* E1 */   dend2 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)     // AMPA     PC
  syn_.tau1 = 0.3
  syn_.tau2 = 0.6
  syn_.e    = 0
}

proc synapses_CA3() {
  /* E2 */   dend1 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)   // AMPA   CA3
  syn_.tau1 = 2.0
  syn_.tau2 = 6.3
  syn_.e    = 0
  /* E3 */   dend2 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)   // AMPA   CA3
  syn_.tau1 = 2.0
  syn_.tau2 = 6.3
  syn_.e    = 0
}

proc synapses_IN() {
  /* I4 */   dend1 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)    // GABA-A Bistratified cells
  syn_.tau1 = 1.0
  syn_.tau2 = 8.0
  syn_.e    = -75
  /* I5 */   dend2 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)    // GABA-A Bistratified cells
  syn_.tau1 = 1.0
  syn_.tau2 = 8.0
  syn_.e    = -75      
  /* I6 */   dend1 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)    // GABA-A OLM
  syn_.tau1 = 0.25
  syn_.tau2 = 7.50
  syn_.e    = -75
  /* I7 */   dend2 syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)    // GABA-A OLM
  syn_.tau1 = 0.25
  syn_.tau2 = 7.50
  syn_.e    = -75      
  /* I8 */   soma syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)    // GABA-A VIP/CR
  syn_.tau1 = 1.0
  syn_.tau2 = 8.0
  syn_.e    = -75           
}

proc synapses_SEP() {
  /* I9 */   soma syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)      // GABA-A   Septum
  syn_.tau1 = 1
  syn_.tau2 = 8
  syn_.e    = -75
  /* I10 */   soma syn_ = new Exp2Syn(0.5)  pre_list.append(syn_)      // GABA-B   Septum
  syn_.tau1 = 35
  syn_.tau2 = 100
  syn_.e    = -75   
}

proc synapses() {
  synapses_PC()
  synapses_CA3()
  synapses_IN()
  synapses_SEP()
}

func is_art() { return 0 }

endtemplate OLMCell

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