Encoding and retrieval in a model of the hippocampal CA1 microcircuit (Cutsuridis et al. 2009)

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Accession:123815
This NEURON code implements a small network model (100 pyramidal cells and 4 types of inhibitory interneuron) of storage and recall of patterns in the CA1 region of the mammalian hippocampus. Patterns of PC activity are stored either by a predefined weight matrix generated by Hebbian learning, or by STDP at CA3 Schaffer collateral AMPA synapses.
Reference:
1 . Cutsuridis V, Cobb S, Graham BP (2009) Encoding and retrieval in a model of the hippocampal CA1 microcircuit. Hippocampus 20(3):423-46 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Hippocampus;
Cell Type(s): Hippocampus CA1 pyramidal cell; Hippocampus CA1 basket cell;
Channel(s):
Gap Junctions:
Receptor(s): GabaA; AMPA; NMDA;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Pattern Recognition; Activity Patterns; Temporal Pattern Generation; Learning; STDP; Connectivity matrix; Storage/recall;
Implementer(s): Graham, Bruce [B.Graham at cs.stir.ac.uk]; Cutsuridis, Vassilis [vcutsuridis at gmail.com];
Search NeuronDB for information about:  Hippocampus CA1 pyramidal cell; GabaA; AMPA; NMDA;
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Hipp_paper_code
Results
Weights
readme.txt
ANsyn.mod *
bgka.mod *
burststim2.mod *
cad.mod *
cagk.mod *
cal.mod *
calH.mod *
car.mod *
cat.mod *
ccanl.mod *
gskch.mod *
h.mod *
hha_old.mod *
hha2.mod *
hNa.mod *
IA.mod *
ichan2.mod *
Ih.mod *
kad.mod *
kap.mod *
Kaxon.mod *
kca.mod *
Kdend.mod *
km.mod *
Ksoma.mod *
LcaMig.mod *
my_exp2syn.mod *
Naaxon.mod *
Nadend.mod *
Nasoma.mod *
nca.mod *
nmda.mod *
regn_stim.mod *
somacar.mod *
STDPE2Syn.mod *
axoaxonic_cell17S.hoc *
basket_cell17S.hoc *
bistratified_cell13S.hoc *
burst_cell.hoc *
HAM_SR.ses
HAM_StoRec_par.hoc
HAM_StoRec_ser.hoc
mosinit.hoc
olm_cell2.hoc
pyramidal_cell_14Vb.hoc
ranstream.hoc *
stim_cell.hoc *
                            
COMMENT
	calcium accumulation into a volume of area*depth next to the
	membrane with a decay (time constant tau) to resting level
	given by the global calcium variable cai0_ca_ion
ENDCOMMENT

NEURON {
	SUFFIX ccanl
USEION nca READ ncai, inca, enca WRITE enca, ncai VALENCE 2
USEION lca READ lcai, ilca, elca WRITE elca, lcai VALENCE 2
USEION tca READ tcai, itca, etca WRITE etca, tcai VALENCE 2
RANGE caiinf, catau, cai, ncai, lcai,tcai, eca, elca, enca, etca
}

UNITS {
        (mV) = (millivolt)
	(molar) = (1/liter)
	(mM) = (milli/liter)
	(mA) = (milliamp)
	FARADAY = 96520 (coul)
	R = 8.3134	(joule/degC)
}

INDEPENDENT {t FROM 0 TO 100 WITH 100 (ms)}

PARAMETER {
        celsius = 6.3 (degC)
	depth = 200 (nm)	: assume volume = area*depth
	catau = 9 (ms)
	caiinf = 50.e-6 (mM)	: takes precedence over cai0_ca_ion
			: Do not forget to initialize in hoc if different
			: from this default.
	cao = 2 (mM)
	ica (mA/cm2)
	inca (mA/cm2)
	ilca (mA/cm2)
	itca (mA/cm2)
	cai= 50.e-6 (mM)
}

ASSIGNED {
	enca (mV)
	elca (mV)
	etca (mV)
	eca (mV)
}

STATE {
	ncai (mM)
	lcai (mM)
	tcai (mM)
}

INITIAL {
	VERBATIM
	ncai = _ion_ncai;
	lcai = _ion_lcai;
	tcai = _ion_tcai; 
	ENDVERBATIM
	ncai=caiinf/3
	lcai=caiinf/3
	tcai=caiinf/3
	cai = caiinf	
	eca = ktf() * log(cao/caiinf)	
	enca = eca
	elca = eca
	etca = eca
}


BREAKPOINT {
	SOLVE integrate METHOD derivimplicit
	cai = ncai+lcai+tcai	
	eca = ktf() * log(cao/cai)	
	enca = eca
	elca = eca
	etca = eca
}

DERIVATIVE integrate {
ncai' = -(inca)/depth/FARADAY * (1e7) + (caiinf/3 - ncai)/catau
lcai' = -(ilca)/depth/FARADAY * (1e7) + (caiinf/3 - lcai)/catau
tcai' = -(itca)/depth/FARADAY * (1e7) + (caiinf/3 - tcai)/catau
}

FUNCTION ktf() (mV) {
	ktf = (1000)*R*(celsius +273.15)/(2*FARADAY)
} 

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