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;
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Turi_et_al_2018
mechanisms
ANsyn.mod
bgka.mod
burststim2.mod *
cad.mod
cadyn.mod
cadyn_new.mod
cagk.mod *
cal.mod
calH.mod *
cancr.mod
car.mod *
cat.mod
ccanl.mod *
gskch.mod
h.mod
hha_old.mod *
hha2.mod
hNa.mod *
IA.mod
iccr.mod
ichan2.mod
ichan2aa.mod
ichan2bc.mod
ichan2bs.mod
ichan2vip.mod
Ih.mod *
Ihvip.mod
ikscr.mod *
kad.mod *
kadistcr.mod
kap.mod
Kaxon.mod
kca.mod
Kdend.mod
kdrcr.mod *
km.mod
Ksoma.mod
LcaMig.mod *
my_exp2syn.mod
Naaxon.mod
Nadend.mod
nafcr.mod *
nap.mod
Nasoma.mod
nca.mod *
nmda.mod
regn_stim.mod
somacar.mod
STDPE2Syn.mod *
vecstim.mod *
                            
TITLE L-type calcium channel with low threshold for activation
: used in somatic and proximal dendritic regions 
: it calculates I_Ca using channel permeability instead of conductance

UNITS {
	(mA) = (milliamp)
	(mV) = (millivolt)
	FARADAY = 96520 (coul)
	R = 8.3134 (joule/degK)
	KTOMV = .0853 (mV/degC)
}

INDEPENDENT {t FROM 0 TO 1 WITH 1 (ms)}

PARAMETER {		:parameters that can be entered when function is called in cell-setup 
    dt              (ms)
	v               (mV)
	celsius = 34	(degC)
	gcalbar = 0     (mho/cm2) : initialized conductance
	ki  = 0.001     (mM)  
	cai = 5.e-5     (mM)      : initial internal Ca++ concentration
	cao = 2         (mM)      : initial external Ca++ concentration
    tfa = 5                   : time constant scaling factor
    eca = 140                 : Ca++ reversal potential
}

NEURON {
    SUFFIX cal
    USEION ca READ cai,cao WRITE ica
    RANGE gcalbar, minf,taum
}

STATE {	m }                      : unknown parameter to be solved in the DEs 

ASSIGNED {                       : parameters needed to solve DE
    ica (mA/cm2)
    gcal  (mho/cm2) 
    minf
    taum
}

INITIAL {                        : initialize the following parameter using rates()
    rates(v)
    m = minf
    gcal = gcalbar*m*h2(cai)
}

BREAKPOINT {
	SOLVE states
	gcal = gcalbar*m*h2(cai) : maximum channel permeability
	ica = gcal*ghk(v,cai,cao): calcium current induced by this channel
}

UNITSOFF
FUNCTION h2(cai(mM)) {
	h2 = ki/(ki+cai)
}

FUNCTION ghk(v(mV), ci(mM), co(mM)) (mV) {
    LOCAL nu,f
    f = KTF(celsius)/2
    nu = v/f
    ghk=-f*(1. - (ci/co)*exp(nu))*efun(nu)
}

FUNCTION KTF(celsius (degC)) (mV) { : temperature-dependent adjustment factor
    KTF = ((25./293.15)*(celsius + 273.15))
}

FUNCTION efun(z) {
	if (fabs(z) < 1e-4) {
		efun = 1 - z/2
	} else {
		efun = z/(exp(z) - 1)
	}
}

FUNCTION alpm(v(mV)) {
	TABLE FROM -150 TO 150 WITH 200
	alpm = 0.055*(-27.01 - v)/(exp((-27.01-v)/3.8) - 1)
}


FUNCTION betm(v(mV)) {
    TABLE FROM -150 TO 150 WITH 200
    betm =0.94*exp((-63.01-v)/17)
}

UNITSON
LOCAL facm
:if state_cagk is called from hoc, garbage or segmentation violation will
:result because range variables won't have correct pointer.  This is because
:only BREAKPOINT sets up the correct pointers to range variables.
PROCEDURE states() {     : exact when v held constant; integrates over dt step
    rates(v)
    m = m + facm*(minf - m)
    VERBATIM
    return 0;
    ENDVERBATIM
}

PROCEDURE rates(v (mV)) { :callable from hoc
    LOCAL a
    a = alpm(v)
    taum = 1/(tfa*(a+betm(v))) : estimation of activation tau
    minf = a/(a+betm(v))       : estimation of activation steady state value
    facm = (1 - exp(-dt/taum))
}




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