Cortical feedback alters visual response properties of dLGN relay cells (Martínez-Cañada et al 2018)

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Network model that includes biophysically detailed, single-compartment and multicompartment neuron models of relay-cells and interneurons in the dLGN and a population of orientation-selective layer 6 simple cells, consisting of pyramidal cells (PY). We have considered two different arrangements of synaptic feedback from the ON and OFF zones in the visual cortex to the dLGN: phase-reversed (‘push-pull’) and phase-matched (‘push-push’), as well as different spatial extents of the corticothalamic projection pattern. This project is the result of a research work and its associated publication is: (Martínez-Cañada et al 2018). Installation instructions as well as the latest version can be found in the Github repository:
1 . Martínez-Cañada P, Mobarhan MH, Halnes G, Fyhn M, Morillas C, Pelayo F, Einevoll GT (2018) Biophysical network modeling of the dLGN circuit: Effects of cortical feedback on spatial response properties of relay cells. PLoS Comput Biol 14:e1005930 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Thalamus;
Cell Type(s):
Gap Junctions:
Simulation Environment: LFPy; NEURON; NEST; Python;
Model Concept(s): Vision;
Implementer(s): Martínez-Cañada, Pablo [pablomc at];
#!/usr/bin/env python
# -*- coding: utf-8 -*-

## Insert active ion-channels in neuron models. This function loops over the
## sections of the morphology, defining which membrane mechanisms and corresponding
## densities and properties are present on the section.

import neuron
nrn = neuron.h

def biophys_active():
    # params
    gna =  0.1
    nash = - 52.6
    gkdr = 0.37
    kdrsh = -51.2
    gahp = 6.4e-5
    gcat = 1.8e-4
    gcal = 0.0009
    ghbar = 0.00011
    catau = 50
    gcanbar = 2e-8
    # Channel distribution (ratio: g_dend/g_soma)
    hhdendfac = 0.1
    ihdendfac = 1
    ldendfac = 0.25
    itinc = 0.0
    actdends = 1

    #some factors
    iahpdendfac = hhdendfac
    #iahpdendfac = 0.1 #want to test unique hhdendfac
    icaninc = itinc

    neuron.h.celsius = 36.0

    for sec in neuron.h.allsec():   
        sec.ghbar_iar=ghbar*ihdendfac    #Ih-cation channel, slow, Zhu
        sec.insert('Cad')   # Calsium pool, Zhu et al.
        sec.insert('ical')  # L-type Ca-current, using pool in Cad
        sec.insert('it2')   # t-type Ca- current, using pool in Cad
        sec.insert('iahp')  # potassium current, slow, Ca-dependent, Zhu et al.
        sec.insert('ican')  # CAN-channel from Zhu et al. 99a
        sec.gkbar_hh2 = gkdr*hhdendfac
        sec.gnabar_hh2 = gna*hhdendfac
        sec.vtraubNa_hh2 = nash
        #sec.gkdrbar_hh2 = gkdr*hhdendfac
        sec.vtraubK_hh2 = kdrsh
        sec.pcabar_ical = gcal*ldendfac
        sec.gkbar_iahp = gahp*iahpdendfac
        sec.ghbar_iar = ghbar*ihdendfac
        sec.gcabar_it2 = gcat*(1 + itinc*neuron.h.distance(1))*actdends
        sec.gbar_ican = gcanbar*(1 + itinc*neuron.h.distance(1))*actdends
        sec.taur_Cad = catau  # Calcium decay needs to know the the volume it enters

        if "soma" in
            sec.gnabar_hh2 = gna # gkdr*hhdendfac
            sec.vtraubNa_hh2 = nash
            sec.gkbar_hh2 = gkdr
            sec.vtraubK_hh2 = kdrsh
            sec.gcabar_it2 = gcat
            sec.pcabar_ical = gcal
            sec.gkbar_iahp = gahp
            sec.ghbar_iar = ghbar
            sec.gbar_ican = gcanbar

    print("active ion-channels inserted")

def active_declarations(**kwargs):

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