Distance-dependent synaptic strength in CA1 pyramidal neurons (Menon et al. 2013)

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Accession:222726
Menon et al. (2013) describes the experimentally-observed variation in synaptic AMPA and NMDA conductance as a function of distance from the soma. This model explores the effect of this variation on somatic EPSPs and dendritic spike initiation, as compared to the case of uniform AMPA and NMDA conductance.
Reference:
1 . Menon V, Musial TF, Liu A, Katz Y, Kath WL, Spruston N, Nicholson DA (2013) Balanced synaptic impact via distance-dependent synapse distribution and complementary expression of AMPARs and NMDARs in hippocampal dendrites. Neuron 80:1451-63 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Synapse;
Brain Region(s)/Organism: Hippocampus;
Cell Type(s): Hippocampus CA1 pyramidal GLU cell;
Channel(s): I A; I K; I Na, slow inactivation;
Gap Junctions:
Receptor(s): AMPA; NMDA;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Synaptic Integration;
Implementer(s): Menon, Vilas [vilasmenon2008 at u dot northwestern dot edu];
Search NeuronDB for information about:  Hippocampus CA1 pyramidal GLU cell; AMPA; NMDA; I A; I K; I Na, slow inactivation;
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MenonEtAl2013
README.txt
dv.mod
ih_new.mod
kadist.mod *
kaprox.mod *
kdrca1.mod *
leakcond.mod *
nafast2.mod
naslowcond2.mod
nmda.mod
spines.mod *
synampa.mod *
vmax.mod
vmax2.mod
vmaxlast.mod
vms.mod
code_membrane.hoc
code_objects.hoc
code_point_processes.hoc
code_routine_for_runs.hoc
code_run_multiple_spines_on_branch.hoc
code_run_single_spine.hoc
code_synapse_array_setup.hoc
code_synapse_setup.hoc
mosinit.hoc
ri06.nrn *
simulated_axon.nrn *
spinearraygeom.nrn
spinegeom.nrn
                            
// this file contains a number of objects that are used in the simulations
// they must be created before they can be referenced in the code

numsecs = tot_nsegs + 800

double vrest[numsecs]   //number in brackets is total number of sections
double vss[numsecs]
double peakv[numsecs], synint[numsecs]
double gmax[numsecs], old_gmax[numsecs]

// lists for spine definitions

objref primary_apical_list
primary_apical_list = new SectionList()
//somaA primary_apical_list.append
dendA5_0 primary_apical_list.append 
dendA5_01 primary_apical_list.append 
dendA5_011 primary_apical_list.append 
dendA5_0111 primary_apical_list.append 
dendA5_01111 primary_apical_list.append 
dendA5_011111 primary_apical_list.append 
dendA5_0111111 primary_apical_list.append 
dendA5_01111111 primary_apical_list.append 
dendA5_011111111 primary_apical_list.append 
dendA5_0111111111 primary_apical_list.append 
dendA5_01111111111 primary_apical_list.append 
dendA5_011111111111 primary_apical_list.append 
dendA5_0111111111111 primary_apical_list.append 
dendA5_01111111111111 primary_apical_list.append 
dendA5_011111111111111 primary_apical_list.append 
dendA5_0111111111111111 primary_apical_list.append 
dendA5_01111111111111111 primary_apical_list.append 

objref tuft
tuft = new SectionList()
dendA5_01111111111111111 tuft.subtree()
dendA5_01111111111111111 tuft.remove()

objref no_spines
no_spines = new SectionList()
dendA1_0 no_spines.append()
dendA1_01 no_spines.append()
dendA1_010 no_spines.append()
dendA2_0 no_spines.append()
dendA2_01 no_spines.append()
dendA2_010 no_spines.append()
dendA3_0 no_spines.append()
dendA3_00 no_spines.append()
dendA3_01 no_spines.append()
dendA4_0 no_spines.append()
dendA5_0 no_spines.append() 
dendA5_01 no_spines.append() 
dendA5_011 no_spines.append() 

objref basal_list
basal_list = new SectionList()
dendA1_0 basal_list.append()
dendA1_01 basal_list.append()
dendA1_010 basal_list.append()
dendA2_0 basal_list.append()
dendA2_01 basal_list.append()
dendA2_010 basal_list.append()
dendA3_0 basal_list.append()
dendA3_00 basal_list.append()
dendA3_01 basal_list.append()
dendA4_0 basal_list.append()

objref apical_list
apical_list = new SectionList()
dendA5_0 apical_list.append() 
dendA5_01 apical_list.append() 
dendA5_011 apical_list.append() 

objref basals
basals = new SectionList()
access dendA1_0
basals.subtree()
access dendA2_0
basals.subtree()
access dendA3_0
basals.subtree()
access dendA4_0
basals.subtree()
dendA1_0 basals.remove()
dendA1_01 basals.remove()
dendA1_010 basals.remove()
dendA2_0 basals.remove()
dendA2_01 basals.remove()
dendA2_010 basals.remove()
dendA3_0 basals.remove()
dendA3_00 basals.remove()
dendA3_01 basals.remove()
dendA4_0 basals.remove()

objref med_spines_rad
med_spines_rad = new SectionList()
dendA5_0111 med_spines_rad.append()		//medium spiny
dendA5_01111 med_spines_rad.append()		//medium spiny 
dendA5_011111 med_spines_rad.append()		//medium spiny
dendA5_0111111 med_spines_rad.append()		//medium spiny 
dendA5_01111111 med_spines_rad.append()		//medium spiny 
dendA5_011111111 med_spines_rad.append()		//medium spiny 
dendA5_0111111111 med_spines_rad.append()		//medium spiny
dendA5_01111111111 med_spines_rad.append()		//medium spiny
dendA5_011111111111 med_spines_rad.append()		//medium spiny

objref med_spines_LM
med_spines_LM = new SectionList()
dendA5_0111111111111111111 med_spines_LM.append()	//medium spiny
dendA5_011111111111111110 med_spines_LM.append()	//medium spiny

objref max_spines_rad
max_spines_rad = new SectionList()
dendA5_0111111111111 max_spines_rad.append()		//very spiny
dendA5_01111111111111 max_spines_rad.append()		//very spiny
dendA5_011111111111111 max_spines_rad.append()		//very spiny
dendA5_0111111111111111 max_spines_rad.append()		//very spiny 
dendA5_01111111111111111 max_spines_rad.append()	//very spiny
dendA5_011111111111111111 max_spines_rad.append()	//very spiny

objref thin_rad
thin_rad = new SectionList()
access dendA5_0
thin_rad.subtree()
dendA5_0 thin_rad.remove()
dendA5_01 thin_rad.remove() 
dendA5_011 thin_rad.remove()
dendA5_0111 thin_rad.remove()		//medium spiny
dendA5_01111 thin_rad.remove()		//medium spiny 
dendA5_011111 thin_rad.remove()		//medium spiny
dendA5_0111111 thin_rad.remove()		//medium spiny 
dendA5_01111111 thin_rad.remove()	//medium spiny 
dendA5_011111111 thin_rad.remove()		//medium spiny 
dendA5_0111111111 thin_rad.remove()		//medium spiny
dendA5_01111111111 thin_rad.remove()		//medium spiny
dendA5_011111111111 thin_rad.remove()	//medium spiny
dendA5_0111111111111 thin_rad.remove()		//very spiny
dendA5_01111111111111 thin_rad.remove()		//very spiny
dendA5_011111111111111 thin_rad.remove()		//very spiny
dendA5_0111111111111111 thin_rad.remove()		//very spiny 
dendA5_01111111111111111 thin_rad.remove()	//very spiny
dendA5_011111111111111111 thin_rad.remove()	//very spiny
dendA5_0111111111111111111 thin_rad.remove()	//medium spiny
dendA5_011111111111111110 thin_rad.remove()	//medium spiny
dendA5_01111111111111110 thin_rad.remove()
dendA5_0111111111111111110 thin_rad.remove()
dendA5_01111111111111111110 thin_rad.remove()
dendA5_011111111111111111100 thin_rad.remove()
dendA5_011111111111111111101 thin_rad.remove()
dendA5_0111111111111111111010 thin_rad.remove()
dendA5_0111111111111111111011 thin_rad.remove()
dendA5_01111111111111111111 thin_rad.remove()
dendA5_011111111111111111110 thin_rad.remove()
dendA5_011111111111111111111 thin_rad.remove()
dendA5_0111111111111111111110 thin_rad.remove()
dendA5_0111111111111111111111 thin_rad.remove()
dendA5_0111111111111111100 thin_rad.remove()
dendA5_0111111111111111101 thin_rad.remove()
dendA5_01111111111111111010 thin_rad.remove()
dendA5_01111111111111111011 thin_rad.remove()
dendA5_011111111111111110110 thin_rad.remove()
dendA5_011111111111111110111 thin_rad.remove()

objref thin_LM
thin_LM = new SectionList()
dendA5_01111111111111110 thin_LM.append()
dendA5_0111111111111111110 thin_LM.append()
dendA5_01111111111111111110 thin_LM.append()
dendA5_011111111111111111100 thin_LM.append()
dendA5_011111111111111111101 thin_LM.append()
dendA5_0111111111111111111010 thin_LM.append()
dendA5_0111111111111111111011 thin_LM.append()
dendA5_01111111111111111111 thin_LM.append()
dendA5_011111111111111111110 thin_LM.append()
dendA5_011111111111111111111 thin_LM.append()
dendA5_0111111111111111111110 thin_LM.append()
dendA5_0111111111111111111111 thin_LM.append()
dendA5_0111111111111111100 thin_LM.append()
dendA5_0111111111111111101 thin_LM.append()
dendA5_01111111111111111010 thin_LM.append()
dendA5_01111111111111111011 thin_LM.append()
dendA5_011111111111111110110 thin_LM.append()
dendA5_011111111111111110111 thin_LM.append()

objref main_dendrites
main_dendrites = new SectionList()
somaA main_dendrites.children()

objref all_dendrites
all_dendrites = new SectionList()
somaA all_dendrites.append()
dendA1_0 all_dendrites.subtree()
dendA2_0 all_dendrites.subtree()
dendA3_0 all_dendrites.subtree()
dendA4_0 all_dendrites.subtree()
dendA5_0 all_dendrites.subtree()

objref apicals
apicals = new SectionList()
dendA5_0 apicals.subtree()

objref new_basals
new_basals = new SectionList()
dendA1_0 new_basals.subtree()
dendA2_0 new_basals.subtree()
dendA3_0 new_basals.subtree()
dendA4_0 new_basals.subtree()

objref basals1
basals1 = new SectionList()
dendA1_0 basals1.subtree()

objref basals2
basals2 = new SectionList()
dendA2_0 basals2.subtree()

objref basals3
basals3 = new SectionList()
dendA3_0 basals3.subtree()

objref basals4
basals4 = new SectionList()
dendA4_0 basals4.subtree()

objref apicals1
apicals1 = new SectionList()
dendA5_0 apicals1.append()
dendA5_00 apicals1.append()
dendA5_01 apicals1.append()
dendA5_010 apicals1.append()
dendA5_0100 apicals1.append()
dendA5_0101 apicals1.append()
dendA5_011 apicals1.append()
dendA5_0110 apicals1.append()
dendA5_01100 apicals1.append()
dendA5_01101 apicals1.append()
dendA5_011010 apicals1.append()

objref apicals2
apicals2 = new SectionList()
dendA5_011011 apicals2.append()
dendA5_0110110 apicals2.append()
dendA5_0110111 apicals2.append()
dendA5_0111 apicals2.append()
dendA5_01110 apicals2.append()
dendA5_01111 apicals2.append()
dendA5_011110 apicals2.append()
dendA5_0111100 apicals2.append()
dendA5_0111101 apicals2.append()
dendA5_011111 apicals2.append()
dendA5_0111110 apicals2.append()
dendA5_01111100 apicals2.append()
dendA5_01111101 apicals2.append()
dendA5_011111010 apicals2.append()
dendA5_011111011 apicals2.append()

objref apicals3
apicals3 = new SectionList()
dendA5_0111110110 apicals3.append()
dendA5_0111110111 apicals3.append()
dendA5_0111111 apicals3.append()
dendA5_01111110 apicals3.append()
dendA5_01111111 apicals3.append()
dendA5_011111110 apicals3.append()
dendA5_011111111 apicals3.append()
dendA5_0111111110 apicals3.append()
dendA5_01111111100 apicals3.append()
dendA5_01111111101 apicals3.append()
dendA5_0111111111 apicals3.append()
dendA5_01111111110 apicals3.append()
dendA5_01111111111 apicals3.append()
dendA5_011111111110 apicals3.append()
dendA5_011111111111 apicals3.append()
dendA5_0111111111110 apicals3.append()
dendA5_01111111111100 apicals3.append()
dendA5_01111111111101 apicals3.append()
dendA5_0111111111111 apicals3.append()
dendA5_01111111111110 apicals3.append()
dendA5_011111111111100 apicals3.append()

objref apicals4
apicals4 = new SectionList()
dendA5_011111111111101 apicals4.append()
dendA5_0111111111111010 apicals4.append()
dendA5_01111111111110100 apicals4.append()
dendA5_01111111111110101 apicals4.append()
dendA5_0111111111111011 apicals4.append()
dendA5_01111111111111 apicals4.append()
dendA5_011111111111110 apicals4.append()
dendA5_011111111111111 apicals4.append()
dendA5_0111111111111110 apicals4.append()
dendA5_0111111111111111 apicals4.append()
dendA5_01111111111111110 apicals4.append()
dendA5_01111111111111111 apicals4.append()
dendA5_011111111111111110 apicals4.append()
dendA5_0111111111111111100 apicals4.append()
dendA5_0111111111111111101 apicals4.append()
dendA5_01111111111111111010 apicals4.append()
dendA5_01111111111111111011 apicals4.append()
dendA5_011111111111111110110 apicals4.append()

objref apicals5
apicals5 = new SectionList()
dendA5_011111111111111110111 apicals5.append()
dendA5_011111111111111111 apicals5.append()
dendA5_0111111111111111110 apicals5.append()
dendA5_0111111111111111111 apicals5.append()
dendA5_01111111111111111110 apicals5.append()
dendA5_011111111111111111100 apicals5.append()
dendA5_011111111111111111101 apicals5.append()
dendA5_0111111111111111111010 apicals5.append()
dendA5_0111111111111111111011 apicals5.append()
dendA5_01111111111111111111 apicals5.append()
dendA5_011111111111111111110 apicals5.append()
dendA5_011111111111111111111 apicals5.append()
dendA5_0111111111111111111110 apicals5.append()
dendA5_0111111111111111111111 apicals5.append()

basalno=74
apicno=79

objref dend[basalno]

dendA1_0 dend[0] = new SectionRef()
dendA1_00 dend[1] = new SectionRef()
dendA1_01 dend[2] = new SectionRef()
dendA1_010 dend[3] = new SectionRef()
dendA1_0100 dend[4] = new SectionRef()
dendA1_01000 dend[5] = new SectionRef()
dendA1_01001 dend[6] = new SectionRef()
dendA1_0101 dend[7] = new SectionRef()
dendA1_01010 dend[8] = new SectionRef()
dendA1_01011 dend[9] = new SectionRef()
dendA1_011 dend[10] = new SectionRef()
dendA1_0110 dend[11] = new SectionRef()
dendA1_01100 dend[12] = new SectionRef()
dendA1_01101 dend[13] = new SectionRef()
dendA1_0111 dend[14] = new SectionRef()
dendA2_0 dend[15] = new SectionRef()
dendA2_00 dend[16] = new SectionRef()
dendA2_01 dend[17] = new SectionRef()
dendA2_010 dend[18] = new SectionRef()
dendA2_0100 dend[19] = new SectionRef()
dendA2_01000 dend[20] = new SectionRef()
dendA2_01001 dend[21] = new SectionRef()
dendA2_0101 dend[22] = new SectionRef()
dendA2_01010 dend[23] = new SectionRef()
dendA2_010100 dend[24] = new SectionRef()
dendA2_010101 dend[25] = new SectionRef()
dendA2_0101010 dend[26] = new SectionRef()
dendA2_01010100 dend[27] = new SectionRef()
dendA2_01010101 dend[28] = new SectionRef()
dendA2_0101011 dend[29] = new SectionRef()
dendA2_01011 dend[30] = new SectionRef()
dendA2_010110 dend[31] = new SectionRef()
dendA2_010111 dend[32] = new SectionRef()
dendA2_0101110 dend[33] = new SectionRef()
dendA2_0101111 dend[34] = new SectionRef()
dendA2_011 dend[35] = new SectionRef() 
dendA2_0110 dend[36] = new SectionRef()
dendA2_01100 dend[37] = new SectionRef()
dendA2_01101 dend[38] = new SectionRef()
dendA2_0111 dend[39] = new SectionRef()
dendA2_01110 dend[40] = new SectionRef()
dendA2_01111 dend[41] = new SectionRef()
dendA2_011110 dend[42] = new SectionRef()
dendA2_011111 dend[43] = new SectionRef()
dendA2_0111110 dend[44] = new SectionRef()
dendA2_0111111 dend[45] = new SectionRef()
dendA3_0 dend[46] = new SectionRef()
dendA3_00 dend[47] = new SectionRef()
dendA3_000 dend[48] = new SectionRef()
dendA3_001 dend[49] = new SectionRef()
dendA3_0010 dend[50] = new SectionRef()
dendA3_0011 dend[51] = new SectionRef()
dendA3_00110 dend[52] = new SectionRef()
dendA3_00111 dend[53] = new SectionRef()
dendA3_01 dend[54] = new SectionRef()
dendA3_010 dend[55] = new SectionRef()
dendA3_0100 dend[56] = new SectionRef()
dendA3_0101 dend[57] = new SectionRef()
dendA3_011 dend[58] = new SectionRef()
dendA3_0110 dend[59] = new SectionRef()
dendA3_0111 dend[60] = new SectionRef()
dendA4_0 dend[61] = new SectionRef()
dendA4_00 dend[62] = new SectionRef()
dendA4_01 dend[63] = new SectionRef()
dendA4_010 dend[64] = new SectionRef()
dendA4_011 dend[65] = new SectionRef()
dendA4_0110 dend[66] = new SectionRef()
dendA4_01100 dend[67] = new SectionRef()
dendA4_01101 dend[68] = new SectionRef()
dendA4_0111 dend[69] = new SectionRef()
dendA4_01110 dend[70] = new SectionRef()
dendA4_011100 dend[71] = new SectionRef()
dendA4_011101 dend[72] = new SectionRef()
dendA4_01111 dend[73] = new SectionRef()

objref apic[apicno]
dendA5_0 apic[0] = new SectionRef()
dendA5_00 apic[1] = new SectionRef()
dendA5_01 apic[2] = new SectionRef()
dendA5_010 apic[3] = new SectionRef()
dendA5_0100 apic[4] = new SectionRef()
dendA5_0101 apic[5] = new SectionRef()
dendA5_011 apic[6] = new SectionRef()
dendA5_0110 apic[7] = new SectionRef()
dendA5_01100 apic[8] = new SectionRef()
dendA5_01101 apic[9] = new SectionRef()
dendA5_011010 apic[10] = new SectionRef()
dendA5_011011 apic[11] = new SectionRef()
dendA5_0110110 apic[12] = new SectionRef()
dendA5_0110111 apic[13] = new SectionRef()
dendA5_0111 apic[14] = new SectionRef()
dendA5_01110 apic[15] = new SectionRef()
dendA5_01111 apic[16] = new SectionRef()
dendA5_011110 apic[17] = new SectionRef()
dendA5_0111100 apic[18] = new SectionRef()
dendA5_0111101 apic[19] = new SectionRef()
dendA5_011111 apic[20] = new SectionRef()
dendA5_0111110 apic[21] = new SectionRef()
dendA5_01111100 apic[22] = new SectionRef()
dendA5_01111101 apic[23] = new SectionRef()
dendA5_011111010 apic[24] = new SectionRef()
dendA5_011111011 apic[25] = new SectionRef()
dendA5_0111110110 apic[26] = new SectionRef()
dendA5_0111110111 apic[27] = new SectionRef()
dendA5_0111111 apic[28] = new SectionRef()
dendA5_01111110 apic[29] = new SectionRef()
dendA5_01111111 apic[30] = new SectionRef()
dendA5_011111110 apic[31] = new SectionRef()
dendA5_011111111 apic[32] = new SectionRef()
dendA5_0111111110 apic[33] = new SectionRef()
dendA5_01111111100 apic[34] = new SectionRef()
dendA5_01111111101 apic[35] = new SectionRef()
dendA5_0111111111 apic[36] = new SectionRef()
dendA5_01111111110 apic[37] = new SectionRef()
dendA5_01111111111 apic[38] = new SectionRef()
dendA5_011111111110 apic[39] = new SectionRef()
dendA5_011111111111 apic[40] = new SectionRef()
dendA5_0111111111110 apic[41] = new SectionRef()
dendA5_01111111111100 apic[42] = new SectionRef()
dendA5_01111111111101 apic[43] = new SectionRef()
dendA5_0111111111111 apic[44] = new SectionRef()
dendA5_01111111111110 apic[45] = new SectionRef()
dendA5_011111111111100 apic[46] = new SectionRef()
dendA5_011111111111101 apic[47] = new SectionRef()
dendA5_0111111111111010 apic[48] = new SectionRef()
dendA5_01111111111110100 apic[49] = new SectionRef()
dendA5_01111111111110101 apic[50] = new SectionRef()
dendA5_0111111111111011 apic[51] = new SectionRef()
dendA5_01111111111111 apic[52] = new SectionRef()
dendA5_011111111111110 apic[53] = new SectionRef()
dendA5_011111111111111 apic[54] = new SectionRef()
dendA5_0111111111111110 apic[55] = new SectionRef()
dendA5_0111111111111111 apic[56] = new SectionRef()
dendA5_01111111111111110 apic[57] = new SectionRef()
dendA5_01111111111111111 apic[58] = new SectionRef()
dendA5_011111111111111110 apic[59] = new SectionRef()
dendA5_0111111111111111100 apic[60] = new SectionRef()
dendA5_0111111111111111101 apic[61] = new SectionRef()
dendA5_01111111111111111010 apic[62] = new SectionRef()
dendA5_01111111111111111011 apic[63] = new SectionRef()
dendA5_011111111111111110110 apic[64] = new SectionRef()
dendA5_011111111111111110111 apic[65] = new SectionRef()
dendA5_011111111111111111 apic[66] = new SectionRef()
dendA5_0111111111111111110 apic[67] = new SectionRef()
dendA5_0111111111111111111 apic[68] = new SectionRef()
dendA5_01111111111111111110 apic[69] = new SectionRef()
dendA5_011111111111111111100 apic[70] = new SectionRef()
dendA5_011111111111111111101 apic[71] = new SectionRef()
dendA5_0111111111111111111010 apic[72] = new SectionRef()
dendA5_0111111111111111111011 apic[73] = new SectionRef()
dendA5_01111111111111111111 apic[74] = new SectionRef()
dendA5_011111111111111111110 apic[75] = new SectionRef()
dendA5_011111111111111111111 apic[76] = new SectionRef()
dendA5_0111111111111111111110 apic[77] = new SectionRef()
dendA5_0111111111111111111111 apic[78] = new SectionRef()

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