GitHub - ModelDBRepository/244416: CA1 pyramidal neuron (Combe et al 2018)

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experiment		experiment
lib		lib
pc2b		pc2b
template		template
cad.mod		cad.mod
cagk.mod		cagk.mod
cal.mod		cal.mod
calH.mod		calH.mod
car.mod		car.mod
cat.mod		cat.mod
cell-setup.hoc		cell-setup.hoc
d3.mod		d3.mod
exp2i.mod		exp2i.mod
fixnseg.hoc		fixnseg.hoc
h.mod		h.mod
init.hoc		init.hoc
kadist.mod		kadist.mod
kaprox.mod		kaprox.mod
kca.mod		kca.mod
kcasimple.mod		kcasimple.mod
kdr.mod		kdr.mod
km.mod		km.mod
mosinit.hoc		mosinit.hoc
multisyn.hoc		multisyn.hoc
na3.mod		na3.mod
na3dend.mod		na3dend.mod
na3notrunk.mod		na3notrunk.mod
nap.mod		nap.mod
nax.mod		nax.mod
netstims.mod		netstims.mod
nmdanet.mod		nmdanet.mod
print.ses		print.ses
readme.html		readme.html
screenshot1.png		screenshot1.png
screenshot2.png		screenshot2.png
screenshot3.png		screenshot3.png
screenshot4.png		screenshot4.png
simplestim.hoc		simplestim.hoc
somacar.mod		somacar.mod
stim2.mod		stim2.mod
trunk.ses		trunk.ses

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<html>
  This is the NEURON code associated with the paper:<p/>
  Combe CL, Canavier CC, Gasparini S (2018) Intrinsic mechanisms of frequency selectivity in the proximal dendrites of CA1 pyramidal neurons. J Neurosci<br/>
  <a href="http://dx.doi.org/10.1523/JNEUROSCI.0449-18.2018">http://dx.doi.org/10.1523/JNEUROSCI.0449-18.2018</a><p/>
  This model entry was contributed by C Canavier. The freely available NEURON
  simulation enivronment (from <a href="http://www.neuron.yale.edu">http://www.neuron.yale.edu</a>) is required for this model.<p/>
  To use:<br/>
  -------<br/>

  Autolaunch from modeldb if the browser is capable or compile the mod
  files and start with mosinit.hoc (easiest) or either multisyn.hoc or
  simplestim.hoc with nrngui. (If you need more help to run the model,
  please refer to:<br/>

  <a href="https://senselab.med.yale.edu/ModelDB/NEURON_DwnldGuide.cshtml">https://senselab.med.yale.edu/ModelDB/NEURON_DwnldGuide.cshtml</a>)<p/>
  On linux for example typing<br/>
  nrngui multisyn.hoc
  <br/>
  Will generate a graph like figure 1B1 (left 40Hz):<p/>
  <img src="./screenshot1.png" width="550">
  <p/>
  and running:<br/>
  nrngui simplestim.hoc
  <br/>
  Will generate a graph like figure 1C (right 100Hz):<p/>
  <img src="./screenshot2.png" width="550">
  <p/>
  Additional running notes:<br/>
  -------------------------<br/>

  The frequency of somatic stimulation can be changed using the
  prameter period in simplestim.hoc which is currently set to 10 ms
  for 100 Hz stimulation. Re-running simplestim.hoc at 25 ms will then
generate a graph similar to figure 2C (left):

  <p/>
  <img src="./screenshot3.png" width="550">
  <p/>

The frequency of synaptic stimulation can be changed using the
parameter named “interval in multisyn.hoc, which is currently set to
25 ms for 40 Hz stimulation. Re-running mutlisyn.hoc with 10 ms will then
generate a graph similar to figure 1B1 (right):

  <p/>
  <img src="./screenshot4.png" width="550">
  <p/>
The calcium concentration in Figure 1B2 and the SK activation in
Figure 1B3 are from compartment trunk[10]. The SK activation variable
was cubed offline.
<p/>
  In order to turn the SK conductance off , set the parameter
  mykca_init to zero in cell-setup.hoc
    
</html>