Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)

 Download zip file   Auto-launch 
Help downloading and running models
Accession:187474
" ... In this work, we develop and apply an automated, stepwise method for fitting a neuron model to data with fine spatial resolution, such as that achievable with voltage sensitive dyes (VSDs) and Ca2+ imaging. ... We apply our method to simulated data from layer 5 pyramidal cells (L5PCs) and construct a model with reduced neuronal morphology. We connect the reduced-morphology neurons into a network and validate against simulated data from a high-resolution L5PC network model. ..."
References:
1 . Hay E, Hill S, Schürmann F, Markram H, Segev I (2011) Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties. PLoS Comput Biol 7:e1002107 [PubMed]
2 . Hay E, Segev I (2015) Dendritic Excitability and Gain Control in Recurrent Cortical Microcircuits. Cereb Cortex 25:3561-71 [PubMed]
3 . Mäki-Marttunen T, Halnes G, Devor A, Metzner C, Dale AM, Andreassen OA, Einevoll GT (2018) A stepwise neuron model fitting procedure designed for recordings with high spatial resolution: Application to layer 5 pyramidal cells. J Neurosci Methods 293:264-283 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Neocortex;
Cell Type(s): Neocortex L5/6 pyramidal GLU cell;
Channel(s): I Na,p; I Na,t; I L high threshold; I T low threshold; I A; I M; I h; I K,Ca; I Calcium; I A, slow;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON; NEURON (web link to model); Python; NeuroML;
Model Concept(s):
Implementer(s): Maki-Marttunen, Tuomo [tuomo.maki-marttunen at tut.fi]; Metzner, Christoph [c.metzner at herts.ac.uk];
Search NeuronDB for information about:  Neocortex L5/6 pyramidal GLU cell; I Na,p; I Na,t; I L high threshold; I T low threshold; I A; I M; I h; I K,Ca; I Calcium; I A, slow;
// Author: Etay Hay, 2011
//    Models of Neocortical Layer 5b Pyramidal Cells Capturing a Wide Range of
//    Dendritic and Perisomatic Active Properties
//    (Hay et al., PLoS Computational Biology, 2011) 
//
// Model of L5 Pyramidal Cell, constrained both for BAC firing and Current Step Firing


begintemplate L5PCbiophys
public biophys

proc biophys() {
	forsec $o1.all {
	  insert pas
		cm = 1
		Ra = 100
		e_pas = -90
	}

  forsec $o1.somatic {
	  insert Ca_LVAst 
	  insert Ca_HVA 
	  insert SKv3_1 
	  insert SK_E2 
	  insert K_Tst 
	  insert K_Pst 
	  insert Nap_Et2 
	  insert NaTa_t
		insert CaDynamics_E2
		insert Ih
		ek = -85
		ena = 50
		gIhbar_Ih = 0.0002
    g_pas = 0.0000338 
  	decay_CaDynamics_E2 = 460.0 
  	gamma_CaDynamics_E2 = 0.000501 
  	gCa_LVAstbar_Ca_LVAst = 0.00343 
  	gCa_HVAbar_Ca_HVA = 0.000992 
  	gSKv3_1bar_SKv3_1 = 0.693 
  	gSK_E2bar_SK_E2 = 0.0441 
  	gK_Tstbar_K_Tst = 0.0812 
  	gK_Pstbar_K_Pst = 0.00223 
  	gNap_Et2bar_Nap_Et2 = 0.00172 
  	gNaTa_tbar_NaTa_t = 2.04 
  }

	forsec $o1.apical {
		cm = 2
		insert Ih
  	insert SK_E2 
  	insert Ca_LVAst 
  	insert Ca_HVA 
  	insert SKv3_1 
  	insert NaTa_t 
  	insert Im 
  	insert CaDynamics_E2
		ek = -85
		ena = 50
    decay_CaDynamics_E2 = 122 
    gamma_CaDynamics_E2 = 0.000509 
    gSK_E2bar_SK_E2 = 0.0012 
  	gSKv3_1bar_SKv3_1 = 0.000261 
  	gNaTa_tbar_NaTa_t = 0.0213 
  	gImbar_Im = 0.0000675 
  	g_pas = 0.0000589 
	}
	$o1.distribute_channels("apic","gIhbar_Ih",2,-0.8696,3.6161,0.0,2.0870,0.00020000000) 
	$o1.distribute_channels("apic","gCa_LVAstbar_Ca_LVAst",3,1.000000,0.010000,685.000000,885.000000,0.0187000000) 
	$o1.distribute_channels("apic","gCa_HVAbar_Ca_HVA",3,1.000000,0.100000,685.000000,885.000000,0.0005550000) 
	
  forsec $o1.basal {
		cm = 2
		insert Ih
		gIhbar_Ih = 0.0002
  	g_pas = 0.0000467 
	}

  forsec $o1.axonal {
  	g_pas = 0.0000325 
	}
}

endtemplate L5PCbiophys

Loading data, please wait...