Synchrony by synapse location (McTavish et al. 2012)

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Accession:144054
This model considers synchrony between mitral cells induced via shared granule cell interneurons while taking into account the spatial constraints of the system. In particular, since inhibitory inputs decay passively along the lateral dendrites, this model demonstrates that an optimal arrangement of the inhibitory synapses will be near the cell bodies of the relevant mitral cells.
Reference:
1 . McTavish TS, Migliore M, Shepherd GM, Hines ML (2012) Mitral cell spike synchrony modulated by dendrodendritic synapse location. Front Comput Neurosci 6:3 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network; Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Olfactory bulb;
Cell Type(s): Olfactory bulb main mitral cell; Olfactory bulb main interneuron granule MC cell;
Channel(s): I Na,t; I A; I K;
Gap Junctions:
Receptor(s): GabaB; AMPA; NMDA;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Synchronization; Olfaction;
Implementer(s): McTavish, Thomas S [thomas.mctavish at yale.edu];
Search NeuronDB for information about:  Olfactory bulb main mitral cell; Olfactory bulb main interneuron granule MC cell; GabaB; AMPA; NMDA; I Na,t; I A; I K;
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mctavish_syncbylocation
src
ampanmda.mod
fi.mod
kamt.mod
kdrmt.mod
naxn.mod
ThreshDetect.mod *
allsynhinton.hoc *
analysis.py
animtest.py
antest.ses *
bulbspikes.py
clear.hoc
connect.hoc
control.ses
default.hoc
granule.hoc *
hinton.hoc
init.hoc *
iterator.hoc *
lptiter.hoc
mgrs.hoc
michele_movie.hoc
mitral.hoc
mosinit.hoc
net.hoc
param.hoc
params.py
parinit.hoc
pattern.hoc
perfrun.hoc
show.hoc
showw.hoc
somesyn.hoc *
sortspike *
split.hoc
start.hoc
start.ses
stimodors.hoc
subset.hoc
subset_control.ses *
synweightsnapshot.py
viewspikes.hoc
viewspikes1.hoc
weight_movie.hoc
weightsave.hoc
                            
{load_file("nrngui.hoc")}
objectvar save_window_, rvp_
objectvar scene_vector_[9]
objectvar ocbox_, ocbox_list_, scene_, scene_list_
{ocbox_list_ = new List()  scene_list_ = new List()}
{pwman_place(0,0,0)}

//Begin ArtCellGUI[0]
{
load_file("netbild.hoc")
}
ocbox_ = new ArtCellGUI(1)
{object_push(ocbox_)}
{
tobj = new MechanismStandard("NetStim")
tobj.set("interval", 10, 0)
tobj.set("number", 1, 0)
tobj.set("start", -1, 0)
tobj.set("noise", 0, 0)
}
{append(tobj, "S")}
{
tobj = new MechanismStandard("NetStim")
tobj.set("interval", 50, 0)
tobj.set("number", 1000, 0)
tobj.set("start", 800, 0)
tobj.set("noise", 0, 0)
}
{append(tobj, "S2")}
{
tobj = new MechanismStandard("NetStim")
tobj.set("interval", 10, 0)
tobj.set("number", 50, 0)
tobj.set("start", 1, 0)
tobj.set("noise", 0, 0)
}
{append(tobj, "S1")}
{object_pop()}
{
ocbox_.map("ArtCellGUI[0]", 732, 27, 362.88, 244.8)
}
objref ocbox_
//End ArtCellGUI[0]


//Begin NetReadyCellGUI[0]
{
load_file("netbild.hoc")
}
{ocbox_ = new NetReadyCellGUI(1)}
{ocbox_.tobj = new CellBuild(1)}
{object_push(ocbox_.tobj)}
{
version(5.7)
continuous = 0
}
{object_push(topol)}
{
first = 0
slist.remove_all()
sname = "dend"
objref tobj
}
{
tobj = new CellBuildSection("soma",0, 0, tobj, 0) slist.append(tobj)
  tobj.position(0,0,15,0) tobj.lx=7.5 tobj.ly=0 tobj.i3d=0
all_init()
}
for i=0, slist.count-1 {slist.object(i).rdses()}
{object_pop()}
{
}
{object_push(subsets)}
{first = 0}
{ tobj = snlist.object(0)}
{consist()}
{object_pop()}
{
}
{object_push(geom)}
{
first = 0
tobj = new GeoSpec(4)
tobj.value = 100
bild.subsets.snlist.object(0).geo.append(tobj)
set_default()
}
{object_pop()}
{
}
{object_push(memb)}
{first=0}
{
tobj = new MechanismStandard("pas")
tobj.set("g_pas", 0.0001, 0)
tobj.set("e_pas", -65, 0)
tobj = new MStanWrap(tobj, 1)
bild.subsets.snlist.object(0).ml.append(tobj)
}
{object_pop()}
{
}
{object_push(manage)}
{
first = 0
classname = "Cell"
etop=1 esub=1 egeom=1 emem=1
itop=1 isub=0 igeom=0 imem=0
bild.topol.names_off = 0
bild.topol.circles_off = 0
output_index = 0  output_x = 1
thresh = -10
}
{object_pop()}
{
cexport()
}
{object_pop()}
{
save_window_=ocbox_.tobj.gtopol
save_window_.size(-200,200,-150,150)
scene_vector_[3] = save_window_
ocbox_.tobj.gtopol = save_window_
save_window_.save_name("ocbox_.tobj.gtopol")
}
{object_push(ocbox_)}
stgui = new SynTypeGUI(1)
{object_push(stgui)}
{
tobj = new MechanismStandard("AmpaNmda")
tobj.set("mg", 1, 0)
}
{append(tobj, "E")}
{
tobj = new MechanismStandard("FastInhib")
tobj.set("tau1", 1, 0)
tobj.set("tau2", 200, 0)
tobj.set("gmax", 0.003, 0)
tobj.set("e", -80, 0)
}
{append(tobj, "I")}
{object_pop()}
nrc = new NetReadyCell(tobj, stgui.stypelist)
nrc.name = "C"
tobj = nrc.cb.topol.slist.object(0)
{nrc.synlist.append(new SynTypeInstance(nrc.stype.object[0],tobj,0.5,0.5,-1))}
tobj = nrc.cb.topol.slist.object(0)
{nrc.synlist.append(new SynTypeInstance(nrc.stype.object[1],tobj,0.5,0.5,2))}
{g.size(-167.014,167.014,-38.2649,38.2649)}
{object_pop()}
{
ocbox_.map("NetReadyCellGUI[0]", 374, 30, 296.64, 128.64)
}
objref ocbox_
//End NetReadyCellGUI[0]


//Begin NetGUI[0]
{
load_file("netbild.hoc")
}
{ocbox_ = new NetGUI(1)}
{object_push(ocbox_)}
{mapold2new = new Vector()  missing = new List()}
original_type("C")
original_type("S")
original_type("S2")
original_type("S1")
newnode(0, 122, 9)
newnode(1, -60, 11)
newnode(2, -160, -56)
newnode(3, -160, 97)
newedge(1, 0, 0, 1, 1)
newedge(2, 1, 0, 1, 1)
newedge(3, 1, 0, 1, 1)
newedge(1, 0, 1, 1, 1)
{create_ = 1  create1()}
{g.size(-538.123,538.123,-510.21,510.21)}
{set_alias(0)}
{object_pop()}
{
ocbox_.map("NetGUI[0]", 326, 214, 410.88, 295.68)
}
objref ocbox_
//End NetGUI[0]


//Begin PointProcessManager
{
load_file("pointman.hoc")
}
{
C_Cell[0].soma ocbox_ = new PointProcessManager(0)
}
{object_push(ocbox_)}
{
mt.select("SEClamp") i = mt.selected()
ms[i] = new MechanismStandard("SEClamp")
ms[i].set("rs", 0.1, 0)
ms[i].set("dur1", 1e+09, 0)
ms[i].set("amp1", -65, 0)
ms[i].set("dur2", 0, 0)
ms[i].set("amp2", 0, 0)
ms[i].set("dur3", 0, 0)
ms[i].set("amp3", 0, 0)
mt.select("SEClamp") i = mt.selected() maction(i)
hoc_ac_ = 0.5
sec.sec move() d1.flip_to(0)
}
{object_pop() doNotify()}
{
ocbox_ = ocbox_.v1
ocbox_.map("PointProcessManager", 146, 565, 208.32, 326.4)
}
objref ocbox_
//End PointProcessManager


//Begin SpikePlot[0] for NetData[0]
{
load_file("netbild.hoc")
}
{ocbox_ = new SpikePlot(NetData[0],1)}
{object_push(ocbox_)}
mode = 1
spikeplotstyle= 0
marksize= 4
markcolor= 1
useline= 1
fwindow = 100
binwidth = 1
build()
subset_start=0
subset_end = 4
{g.size(0,3000,0,5)}
{object_pop()}
{
ocbox_.map("SpikePlot[0] for NetData[0]", 397, 563, 304.32, 333.12)
}
objref ocbox_
//End SpikePlot[0] for NetData[0]

{
save_window_ = new Graph(0)
save_window_.size(0,3000,8.73115e-11,0.0025)
scene_vector_[7] = save_window_
{save_window_.view(0, 8.73115e-11, 3000, 0.0025, 772, 332, 300.48, 200.32)}
graphList[2].append(save_window_)
save_window_.save_name("graphList[2].")
save_window_.addexpr("AmpaNmda[0].gampa", 1, 1, 0.410224, 0.952716, 2)
save_window_.addexpr("AmpaNmda[0].gnmda", 2, 1, 0.407029, 0.943131, 2)
}
{
xpanel("RunControl", 0)
v_init = -65
xvalue("Init","v_init", 1,"stdinit()", 1, 1 )
xbutton("Init & Run","run()")
xbutton("Stop","stoprun=1")
runStopAt = 5
xvalue("Continue til","runStopAt", 1,"{continuerun(runStopAt) stoprun=1}", 1, 1 )
runStopIn = 1000
xvalue("Continue for","runStopIn", 1,"{continuerun(t + runStopIn) stoprun=1}", 1, 1 )
xbutton("Single Step","steprun()")
t = 3000
xvalue("t","t", 2 )
tstop = 3000
xvalue("Tstop","tstop", 1,"tstop_changed()", 0, 1 )
dt = 8.32887
xvalue("dt","dt", 1,"setdt()", 0, 1 )
steps_per_ms = 40
xvalue("Points plotted/ms","steps_per_ms", 1,"setdt()", 0, 1 )
screen_update_invl = 0.05
xvalue("Scrn update invl","screen_update_invl", 1,"", 0, 1 )
realtime = 0.2
xvalue("Real Time","realtime", 0,"", 0, 1 )
xpanel(6,269)
}

//Begin VariableTimeStep
{
ocbox_ = NumericalMethodPanel[0]
}
{object_push(ocbox_)}
{
atol_ = 1e-05  CVode[0].atol(atol_)
restore(301, 1)
}
{object_pop()}
{
ocbox_.map("VariableTimeStep", 21, 117, 272.64, 113.28)
}
objref ocbox_
//End VariableTimeStep

{
save_window_ = new Graph(0)
save_window_.size(0,3000,0,0.05)
scene_vector_[8] = save_window_
{save_window_.view(0, 0, 3000, 0.05, 771, 610, 300.48, 200.32)}
graphList[2].append(save_window_)
save_window_.save_name("graphList[2].")
save_window_.addvar("FastInhib[0].g", 1, 1, 0.451757, 0.952716, 2)
}
objectvar scene_vector_[1]
{doNotify()}