Role for short term plasticity and OLM cells in containing spread of excitation (Hummos et al 2014)

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Accession:168314
This hippocampus model was developed by matching experimental data, including neuronal behavior, synaptic current dynamics, network spatial connectivity patterns, and short-term synaptic plasticity. Furthermore, it was constrained to perform pattern completion and separation under the effects of acetylcholine. The model was then used to investigate the role of short-term synaptic depression at the recurrent synapses in CA3, and inhibition by basket cell (BC) interneurons and oriens lacunosum-moleculare (OLM) interneurons in containing the unstable spread of excitatory activity in the network.
References:
1 . Hummos A, Franklin CC, Nair SS (2014) Intrinsic mechanisms stabilize encoding and retrieval circuits differentially in a hippocampal network model. Hippocampus 24:1430-48 [PubMed]
2 . Hummos A, Nair SS (2017) An integrative model of the intrinsic hippocampal theta rhythm. PLoS One 12:e0182648 [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): Dentate gyrus granule GLU cell; Hippocampus CA3 pyramidal GLU cell; Hippocampus CA3 interneuron basket GABA cell; Hippocampus CA3 stratum oriens lacunosum-moleculare interneuron; Abstract Izhikevich neuron;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s): Acetylcholine; Gaba; Glutamate;
Simulation Environment: NEURON;
Model Concept(s): Activity Patterns; Epilepsy; Storage/recall;
Implementer(s):
Search NeuronDB for information about:  Dentate gyrus granule GLU cell; Hippocampus CA3 pyramidal GLU cell; Hippocampus CA3 interneuron basket GABA cell; Acetylcholine; Gaba; Glutamate;
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// Model Templates //
/////////////////////


begintemplate IzhiCell_CA3
	public soma
	create soma

	public IzhiSoma

	public init

	objref IzhiSoma
	
	public setv
		proc setv() {
		     forall v = $1
		   }

	
	proc init() {
		/////// topology ////////
		create soma
		
		/////// geometry ////////
		soma {nseg=1 L=40 diam=40} // changed L & diam
	
		/////// biophysics ///////
		soma {
			cm= 1.5		//(microF/cm2)
			Ra= 210		//(ohm-cm)
			
			IzhiSoma = new IZH(0.5)
		
			IzhiSoma.k = 0.0015
			IzhiSoma.vr = -75
			IzhiSoma.vt = -58
			IzhiSoma.a = 0.01
			IzhiSoma.b = .002
			IzhiSoma.vpeak = 29
			IzhiSoma.c = -63
			IzhiSoma.d = 0.06//3.9
			IzhiSoma.dACH = 0.01
			IzhiSoma.cACH = 2
			IzhiSoma.vrACH = 5
			
			// IzhiSoma.uinit = u
		  	}
	
			////////////// Burst then tonic - This is another type of pyramidal cells as reported in Brown and Randall 2008
					// soma {
			// cm= 1.5		//(microF/cm2)
			// Ra= 210		//(ohm-cm)
			// u = 0
			
			// IzhiSoma = new IZH(0.5)
		
			// IzhiSoma.k = 0.0015
			// IzhiSoma.vr = -75
			// IzhiSoma.vt = -58
			// IzhiSoma.a = 0.004 // from 0.01
			// IzhiSoma.b = .002
			// IzhiSoma.vpeak = 29
			// IzhiSoma.c = -62 // from -63
			// IzhiSoma.d = 0.05 // from 0.06//3.9
			// IzhiSoma.dACH = 0.01
			// IzhiSoma.cACH = 2
			// IzhiSoma.vrACH = 5
			
			// IzhiSoma.uinit = u
		  	// }
			
			
			//////////////// With burst and silence -This is another type of pyramidal cells as reported in Brown and Randall 2008
								// soma {
			// cm= 1.5		//(microF/cm2)
			// Ra= 210		//(ohm-cm)
			// u = 0
			
			// IzhiSoma = new IZH(0.5)
		
			// IzhiSoma.k = 0.0021
			// IzhiSoma.vr = -75
			// IzhiSoma.vt = -58
			// IzhiSoma.a = 0.003 // from 0.01
			// IzhiSoma.b = .002
			// IzhiSoma.vpeak = 29
			// IzhiSoma.c = -60 // from -63
			// IzhiSoma.d = 0.03 // from 0.06//3.9
			// IzhiSoma.dACH = 0.01
			// IzhiSoma.cACH = 2
			// IzhiSoma.vrACH = 5
			
			// IzhiSoma.uinit = u
		  	// }


	}
		public setu
	proc setu() {
	forall u = $1
	IzhiSoma.uinit = $1
	}
	
endtemplate IzhiCell_CA3

////////////////////////////////////////////////////////////////
/////////////////////////////////GC////////////////////////////
begintemplate IzhiCell_GC
	public soma
	create soma

	public IzhiSoma

	public init
	
	objref IzhiSoma
	public setv
	proc setv() {
	forall v = $1
	}
	proc init() {
		/////// topology ////////
		create soma
		
		/////// geometry ////////
		soma {nseg=1 L=40 diam=40} // changed L & diam
			
		
		/////// biophysics ///////
		soma {
			cm= 1.5//12		//(microF/cm2)
			Ra= 210		//(ohm-cm)
	
			IzhiSoma = new IZH(0.5)
			
			IzhiSoma.k = 0.001
			IzhiSoma.vr = -73
			IzhiSoma.vt = -53
			IzhiSoma.a = 0.015
			IzhiSoma.b = .003
			IzhiSoma.vpeak = 32
			IzhiSoma.c = -62
			IzhiSoma.d = 0.003
			  IzhiSoma.dACH = 0.001
			  IzhiSoma.cACH = 12 
			  IzhiSoma.vrACH = 1 
		  	}


	}

endtemplate IzhiCell_GC

////////////////////////////////////////////////////////////////
/////////////////////////////////EC////////////////////////////
begintemplate IzhiCell_EC
	public soma
	create soma

	public IzhiSoma

	public init, id
	

	objref IzhiSoma
	public setv
	proc setv() {
	forall v = $1
	}
	proc init() {
		/////// topology ////////
		create soma
		
		/////// geometry ////////
		soma {nseg=1 L=40 diam=40} // changed L & diam
			
		
		/////// biophysics ///////
		soma {
			cm= 1//12		//(microF/cm2)
			Ra= 210		//(ohm-cm)
	
			IzhiSoma = new IZH(0.5)
			
			IzhiSoma.k = 0.0008
			IzhiSoma.vr = -64
			IzhiSoma.vt = -55
			IzhiSoma.a = 0.08
			IzhiSoma.b = .014
			IzhiSoma.vpeak = 40
			IzhiSoma.c = -50
			IzhiSoma.d = 0.6

		  	}


	}

endtemplate IzhiCell_EC

////////////////////////////////////////////////////////////////
/////////////////////////////////OLM////////////////////////////
begintemplate IzhiCell_OLM
	public soma
	create soma

	public IzhiSoma

	objref IzhiSoma

	public setv
	proc setv() {
	forall v = $1
	}
	
	proc init() {
		/////// topology ////////
		create soma
		
		/////// geometry ////////
		soma {nseg=1 L=40 diam=40} //0.004cm 16e-6 * 5 = 80e-6 microF = 80pF
		/////// biophysics ///////
		soma {
			cm= 5//12		//(microF/cm2)
			Ra= 210		//(ohm-cm)

			IzhiSoma = new IZH(0.5)
	
			IzhiSoma.k = 0.0015
			IzhiSoma.vr = -68 // taken from the first cell in Ali AB, Thomson AM (1998)
			IzhiSoma.vt = -53 // Estimated from graph in Ali AB, Thomson AM (1998)
			IzhiSoma.a = 0.0031
			IzhiSoma.b = .01
			IzhiSoma.vpeak = 30 
			IzhiSoma.c = -65
			IzhiSoma.d = 0.03
			
			IzhiSoma.vrACH = 3
			IzhiSoma.ACHshutdown = 1
			// IzhiSoma.peakFactor = 30
			// IzhiSoma.cFactor = 10

		  	}


	}

	
endtemplate IzhiCell_OLM

////////////////////////////////////////////////////////////////
/////////////////////////////////Basket//////////////////////////

begintemplate IzhiCell_BC
	public soma
	create soma

	public IzhiSoma
	objref IzhiSoma

	public setv
	proc setv() {
	forall v = $1
	}
	
	proc init() {
		/////// topology ////////
		create soma
		
		/////// geometry ////////
		soma {nseg=1 L=40 diam=40} // changed L & diam
					
		/////// biophysics ///////
		soma {
			cm= 1.4//12		//(microF/cm2)
			Ra= 210		//(ohm-cm)

			IzhiSoma = new IZH(0.5)
	
			IzhiSoma.k = 0.0015
			IzhiSoma.vr = -65
			IzhiSoma.vt = -50
			IzhiSoma.a = 0.9  
			IzhiSoma.b = .002
			IzhiSoma.vpeak = 28
			IzhiSoma.c = -80
			IzhiSoma.d = 0.4
			IzhiSoma.vrACH = 2

		  	}


	}

	
endtemplate IzhiCell_BC


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