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
Citations  Citation Browser
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 *
                            
: simple first-order model of calcium dynamics
: Modified on Feb 22th 2018 based on Boening et al 2014.

NEURON {
	SUFFIX cadyn_new
	USEION ca READ cai,ica WRITE cai 
	RANGE  ca 
	GLOBAL depth,cainf,taur 
     
}

UNITS {
	(molar) = (1/liter)		
	(mM)    = (milli/liter)
	(um)	= (micron) 
	(mA)    = (milliamp)
	(msM)	= (ms mM)  
	FARADAY = (faraday) (coul)
}

PARAMETER {
	depth	= .1	(um)		
	taur    =  200  (ms)	: rate of calcium removal for stress conditions
	cainf	= 50e-6 (mM)	: changed oct2
	cai		        (mM)
}

ASSIGNED {
	ica		      (mA/cm2)
	diam          (um)
	VSR           (um)
	B             (mM*cm2/mA) 
	drive_channel (mM/ms)
}

STATE {
	ca (mM) 
}

BREAKPOINT {
	SOLVE state METHOD euler
}

DERIVATIVE state {
	drive_channel =  - ica * B

	if (drive_channel <= 0.) {
		: cannot pump inward
		drive_channel = 0.
	}
    : Differential equation
    ca' = drive_channel/18 + (cainf -ca)/taur*11
    : Initial Value
	cai = ca
}

INITIAL {
: if diameter gets less than double the depth, 
: the surface to volume ratio (here volume to surface ratio VSR)
: cannot be less than 1/(0.25diam) (instead of diam/(d*(diam-d)) )
	if (2*depth >= diam) {
		VSR = 0.25 * diam 
	} else {
		VSR = depth * ( 1 - depth/diam)
	}

	B  = (1e4) / (2*FARADAY*VSR)
	ca = cainf
}