Electrodecrements in in vitro model of infantile spasms (Traub et al 2020)

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Accession:263705
The code is an extension of the thalamocortical model of Traub et al. (2005) J Neurophysiol. It is here applied to an in vitro model of the electrodecremental response seen in the EEG of children with infantile spasms (West syndrome)
Reference:
1 . Traub RD, Moeller F, Rosch R, Baldeweg T, Whittington MA, Hall SP (2020) Seizure initiation in infantile spasms vs. focal seizures: proposed common cellular mechanisms. Rev Neurosci 31:181-200 [PubMed]
2 . Hall S, Hunt M, Simon A, Cunnington LG, Carracedo LM, Schofield IS, Forsyth R, Traub RD, Whittington MA (2015) Unbalanced Peptidergic Inhibition in Superficial Neocortex Underlies Spike and Wave Seizure Activity. J Neurosci 35:9302-14 [PubMed]
3 . Carracedo LM, Kjeldsen H, Cunnington L, Jenkins A, Schofield I, Cunningham MO, Davies CH, Traub RD, Whittington MA (2013) A neocortical delta rhythm facilitates reciprocal interlaminar interactions via nested theta rhythms. J Neurosci 33:10750-61 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Thalamus; Neocortex;
Cell Type(s): Thalamus geniculate nucleus/lateral principal GLU cell; Thalamus reticular nucleus GABA cell; Neocortex U1 L6 pyramidal corticalthalamic GLU cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex layer 4 pyramidal cell; Neocortex fast spiking (FS) interneuron; Neocortex spiking regular (RS) neuron; Neocortex spiking low threshold (LTS) neuron; Neocortex spiny stellate cell;
Channel(s): I Na,p; I Na,t; I L high threshold; I A; I K; I M; I h; I K,Ca; I Calcium; I A, slow;
Gap Junctions: Gap junctions;
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: FORTRAN;
Model Concept(s): Brain Rhythms; Epilepsy;
Implementer(s): Traub, Roger D [rtraub at us.ibm.com];
Search NeuronDB for information about:  Thalamus geniculate nucleus/lateral principal GLU cell; Thalamus reticular nucleus GABA cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex U1 L6 pyramidal corticalthalamic GLU cell; I Na,p; I Na,t; I L high threshold; I A; I K; I M; I h; I K,Ca; I Calcium; I A, slow;
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plateauVFO11
readme.txt
dexptablebig_setup.f *
dexptablesmall_setup.f *
durand.f *
fnmda.f *
gettime.c *
groucho_gapbld.f *
groucho_gapbld_mix.f *
integrate_deepaxaxx.f *
integrate_deepbaskx.f *
integrate_deepLTSx.f *
integrate_deepng.f *
integrate_nrtxB.f *
integrate_spinstelldiegoxB.f *
integrate_supaxaxx.f *
integrate_supbaskx.f *
integrate_supLTSX.f *
integrate_supng.f *
integrate_suppyrFRBxPB.f *
integrate_tcrxB.f *
integrate_tuftRSXXB.f *
makefile
otis.f *
otis_table_setup.f *
plateauVFO.f
plateauVFO11.nontuftRS
plateauVFO11.pdf
plateauVFO11.suppyrRS
plateauVFO11.tuftIB
synaptic_compmap_construct.f *
synaptic_map_construct.f *
                            
! 15 Nov. 2003, variation of groucho_gapbld.f to allow for gj
! between 2 cell populations, eg suppyrRS and suppyrFRB, or
! tuftRS and tuftIB.  Structure of gjtable as before, with col. 1
! giving cell of 1st type and col. 3 giving coupled cell of 2nd type.

      SUBROUTINE GROUCHO_gapbld_mix (thisno, numcells1, numcells2,
     & numgj, gjtable, allowedcomps, num_allowedcomps, display)
c       Construct a gap-junction network for groucho.f
c numcells1 = number of cells in 1st population.
c numcells2 = number of cells in 2nd population.
c numgj = total number of gj to be formed between these populations.
c gjtable = table of gj's: each row is a gj.  Entries are: cell A,
c    compartment on cell A; cell B, compartment on cell B
c allowedcomps = a list of compartments where gj allowed to form
c num_allowedcomps = number of compartments in a cell on which a gj 
c    might form.
! IT IS ASSUMED THAT ALLOWEDCOMPS AND NUM_ALLOWEDCOMPS SAME FOR
! THE 2 POPULATIONS.
c display is an integer flag.  If display = 1, print gjtable

        INTEGER thisno, numcells1, numcells2, numgj, gjtable(numgj,4),
     &    num_allowedcomps, allowedcomps(num_allowedcomps)
        INTEGER i,j,k,l,m,n,o,p, ictr /0/
c ictr keeps track of how many gj have been "built"
        INTEGER display

        double precision seed, x1(1), x2(1), y(2)

            seed = 137.d0
            gjtable = 0
            ictr = 0

2              k = 1
            call durand (seed, k, x1)
            call durand (seed, k, x2)
c This defines a candidate cell pair
               k = 2
            call durand (seed, k, y)
c This defines a candidate pair of compartments

           i = int ( x1(1) * dble (numcells1) )
           j = int ( x2(1) * dble (numcells2) )
           if (i.eq.0) i = 1
           if (i.gt.numcells1) i = numcells1
           if (j.eq.0) j = 1
           if (j.gt.numcells2) j = numcells2

c Is the ORDERED cell pair (i,j) in the list so far?
           if (ictr.eq.0) goto 1

           p = 0
         do L = 1, ictr
       if ((gjtable(L,1).eq.i).and.(gjtable(L,3).eq.j)) p = 1
         end do

          if (p.eq.1) goto 2

c Proceed with construction
1          ictr = ictr + 1
           m = int ( y(1) * dble (num_allowedcomps) )
           n = int ( y(2) * dble (num_allowedcomps) )
         if (m.eq.0) m = 1
         if (m.gt.num_allowedcomps) m = num_allowedcomps
         if (n.eq.0) n = 1
         if (n.gt.num_allowedcomps) n = num_allowedcomps

         gjtable (ictr,1) = i
         gjtable (ictr,3) = j
         gjtable (ictr,2) = allowedcomps (m)
         gjtable (ictr,4) = allowedcomps (n)

            if (ictr.lt.numgj) goto 2

c Possibly print out gjtable when done.
       if ((display.eq.1).and.(thisno.eq.0)) then
        write (6,800)           
800     format(' MIX GJTABLE ')
        do i = 1, numgj
         write (6,50) gjtable(i,1), gjtable(i,2),
     &                gjtable(i,3), gjtable(i,4)
50       FORMAT(4i6)
        end do
       endif

                 END