Ih tunes oscillations in an In Silico CA3 model (Neymotin et al. 2013)

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Accession:151282
" ... We investigated oscillatory control using a multiscale computer model of hippocampal CA3, where each cell class (pyramidal, basket, and oriens-lacunosum moleculare cells), contained type-appropriate isoforms of Ih. Our model demonstrated that modulation of pyramidal and basket Ih allows tuning theta and gamma oscillation frequency and amplitude. Pyramidal Ih also controlled cross-frequency coupling (CFC) and allowed shifting gamma generation towards particular phases of the theta cycle, effected via Ih’s ability to set pyramidal excitability. ..."
Reference:
1 . Neymotin SA, Hilscher MM, Moulin TC, Skolnick Y, Lazarewicz MT, Lytton WW (2013) Ih Tunes Theta/Gamma Oscillations and Cross-Frequency Coupling In an In Silico CA3 Model PLoS ONE 8(10):e76285 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Hippocampus;
Cell Type(s): Hippocampus CA3 pyramidal cell; Hippocampus CA3 basket cell; Hippocampus CA3 stratum oriens lacunosum-moleculare interneuron;
Channel(s): I Na,t; I A; I K; I K,leak; I h; I K,Ca; I Sodium; I Potassium;
Gap Junctions:
Receptor(s): GabaA; AMPA; NMDA; Glutamate;
Gene(s): HCN1; HCN2;
Transmitter(s): Gaba; Glutamate;
Simulation Environment: NEURON; Python;
Model Concept(s): Oscillations; Brain Rhythms; Conductance distributions; Multiscale;
Implementer(s): Lazarewicz, Maciej [mlazarew at gmu.edu]; Neymotin, Sam [samn at neurosim.downstate.edu];
Search NeuronDB for information about:  Hippocampus CA3 pyramidal cell; Hippocampus CA3 basket cell; GabaA; AMPA; NMDA; Glutamate; I Na,t; I A; I K; I K,leak; I h; I K,Ca; I Sodium; I Potassium; Gaba; Glutamate;
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ca3ihdemo
readme.txt
CA3ih.mod
CA3ika.mod
CA3ikdr.mod
CA3ina.mod
caolmw.mod *
HCN1.mod
icaolmw.mod *
iholmw.mod
ihstatic.mod
kcaolmw.mod *
kdrbwb.mod *
misc.mod *
MyExp2SynBB.mod *
MyExp2SynNMDABB.mod *
nafbwb.mod *
stats.mod *
vecst.mod *
aux_fun.inc *
declist.hoc *
decmat.hoc *
decnqs.hoc *
decvec.hoc *
default.hoc *
drline.hoc *
geom.py
grvec.hoc *
init.hoc
labels.hoc *
local.hoc *
misc.h *
network.py
nqs.hoc *
nrnoc.hoc *
params.py
pyinit.py *
pywrap.hoc
run.py
sim.py
simctrl.hoc *
stats.hoc *
syncode.hoc *
xgetargs.hoc *
                            
// $Id: simctrl.hoc,v 1.14 2000/11/27 21:59:33 billl Exp $
// Graphic routines for neuremacs simulation control

proc sim_panel () {
  xpanel(simname)
        xvarlabel(output_file)
	xbutton("Init", "stdinit()")
	xbutton("Init & Run", "run()")
	xbutton("Stop", "stoprun=1")
	xbutton("Continue till Tstop", "continueRun(tstop)")
	xvalue("Continue till", "runStopAt", 1, "{continueRun(runStopAt) stoprun=1}", 1, 1)
	xvalue("Continue for", "runStopIn", 1, "{continueRun(t + runStopIn) stoprun=1}", 1,1)
	xbutton("Single Step", "steprun()")
	xvalue("Tstop", "tstop", 1, "tstop_changed()", 0, 1)
	graphmenu()
	sim_menu_bar()
	misc_menu_bar()
  xpanel()
}

proc misc_menu_bar() {
  xmenu("Miscellaneous")
    xbutton("Label Graphs", "labelgrs()")
    xbutton("Label With String", "labelwith()")
    xbutton("Label Panel", "labelpanel()")
	xbutton("Parameterized Function", "load_template(\"FunctionFitter\") makefitter()")
  xmenu()
}

proc sim_menu_bar() {
  xmenu("Simulation Control")
    xbutton("File Vers", "elisp(\"sim-current-files\")")
    xbutton("File Status...", "elisp(\"sim-rcs-status\")")
    xbutton("Sim Status", "elisp(\"sim-portrait\")")
    xbutton("Load Current Files", "elisp(\"sim-load-sim\")")
    xbutton("Load Templates", "elisp(\"sim-load-templates\")") 
    xbutton("Load File...", "elisp(\"sim-load-file\")") 
    xbutton("Save Sim...", "elisp(\"sim-save-sim\")")
    xbutton("Set File Vers...", "elisp(\"sim-set-file-ver\")")
    xbutton("Read Current Vers From Index", "elisp(\"sim-read-index-file\")")
    xbutton("Read Last Saved Vers", "elisp(\"sim-read-recent-versions\")")
    xbutton("Output to sim buffer", "elisp(\"sim-direct-output\")")
  xmenu()
}

proc labelpanel() {
  xpanel(simname,1)
	xvarlabel(output_file)
  xpanel()
}

proc labels () {
  labelwith($s1)
  labelgrs()
}

proc labelgrs () { local i, j, cnt
  for j=0,n_graph_lists-1 {
    cnt = graphList[j].count() - 1
    for i=0,cnt labelgr(graphList[j].object(i))
  }
}

proc labelwith () { local i, j, cnt
  temp_string_ = user_string_  // save the old one
  if (numarg() == 1) { /* interactive mode */  
    user_string_ = $s1
  } else {
    string_dialog("write what?", user_string_)
  }
  for j=0,n_graph_lists-1 {
    cnt = graphList[j].count() - 1
    for i=0,cnt {
      graphList[j].object(i).color(0)
      graphList[j].object(i).label(0.5,0.9,temp_string_)
      graphList[j].object(i).color(1)
      graphList[j].object(i).label(0.5,0.9,user_string_)
    }
  }
}

proc labelgr () { local i
  $o1.color(0)  // white overwrite
  for (i=0;i<10;i=i+1) { // erase every possible runnum for this date
    sprint(temp_string_,"%s %d%d",datestr,i,i)
    $o1.label(0.1,0.7,temp_string_) }
  $o1.color(1) // back to basic black
  sprint(temp_string_,"%s %02d",datestr,runnum)
  $o1.label(0.1,0.7,temp_string_)
}


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