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 *
                            
TITLE gskch.mod  calcium-activated potassium channel (non-voltage-dependent)

COMMENT

gsk granule

ENDCOMMENT

UNITS {
        (molar) = (1/liter)
        (mM)    = (millimolar)
	(mA)	= (milliamp)
	(mV)	= (millivolt)
}

NEURON {
	SUFFIX gskch
	USEION sk READ esk WRITE isk VALENCE 1
	USEION nca READ ncai VALENCE 2
	USEION lca READ lcai VALENCE 2
	USEION tca READ tcai VALENCE 2
	RANGE gsk, gskbar, qinf, qtau, isk
}

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

PARAMETER {
	celsius=6.3 (degC)
	v		(mV)
	dt		(ms)
	gskbar  (mho/cm2)
	esk	(mV)
	cai (mM)
	ncai (mM)
	lcai (mM)
	tcai (mM)
}

STATE { q }

ASSIGNED {
	isk (mA/cm2) gsk (mho/cm2) qinf qtau (ms) qexp
}


BREAKPOINT {          :Computes i=g*q^2*(v-esk)
	SOLVE state
        gsk = gskbar * q*q
	isk = gsk * (v-esk)
}

UNITSOFF

INITIAL {
	cai = ncai + lcai + tcai	
	q=qinf
	rate(cai)
	VERBATIM
	ncai = _ion_ncai;
	lcai = _ion_lcai;
	tcai = _ion_tcai;
	ENDVERBATIM
}


PROCEDURE state() {  :Computes state variable q at current v and dt.
	cai = ncai + lcai + tcai
	rate(cai)
	q = q + (qinf-q) * qexp
	VERBATIM
	return 0;
	ENDVERBATIM
}

LOCAL q10
PROCEDURE rate(cai) {  :Computes rate and other constants at current v.
	LOCAL alpha, beta, tinc
	:q10 = 3^((celsius - 6.3)/10)
		:"q" activation system
	q10 = 1	: BPG
alpha = 1.25e1 * cai * cai
beta = 0.00025 

:	alpha = 0.00246/exp((12*log10(cai)+28.48)/-4.5)
:	beta = 0.006/exp((12*log10(cai)+60.4)/35)
: alpha = 0.00246/fctrap(cai)
: beta = 0.006/fctrap(cai)
	qtau = 1 / (alpha + beta)
	qinf = alpha * qtau
	tinc = -dt*q10
	qexp = 1 - exp(tinc/qtau)*q10
}

UNITSON

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