A Neural mass computational model of the Thalamocorticothalamic circuitry (Bhattacharya et al. 2011)

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Accession:138970
The model presented here is a bio-physically plausible version of a simple thalamo-cortical neural mass computational model proposed by Lopes da Silva in 1974 to simulate brain EEG activity within the alpha band (8-13 Hz). The thalamic and cortical circuitry are presented as separate modules in this model with cell populations as in biology. The connectivity between cell populations are as reported by Sherman, S. in Scholarpedia, 2006. The values of the synaptic connectivity parameters are as reported by Van Horn et al, 2000. In our paper (doi:10.1016/j.neunet.2011.02.009), we study the model behaviour while varying the values of the synaptic connectivity parameters (Cyyy) in the model about their respective 'basal' (intial) values.
Reference:
1 . Bhattacharya BS, Coyle D, Maguire LP (2011) A thalamo-cortico-thalamic neural mass model to study alpha rhythms in Alzheimer's disease. Neural Netw 24:631-45 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Connectionist Network; Neural mass;
Brain Region(s)/Organism: Neocortex; Thalamus;
Cell Type(s):
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: MATLAB; Simulink;
Model Concept(s): Aging/Alzheimer`s; Brain Rhythms;
Implementer(s): Sen-Bhattacharya, Basabdatta [basab.sen.b at gmail.com];
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  Description		  "THE MODEL IS DESIGNED BY BASABDATTA SEN BHATTACHARYA \nAND IS AN INTELLECTUAL PROPERTY OF THE UNIVER"
  "SITY OF ULSTER, \nNORTHERN IRELAND, UK. \nPLEASE CITE THE FOLLOWING PAPER WHEN USING THE MODEL IN YOUR WORK:\nSen Bh"
  "attacharya, Basabdatta, Coyle, Damien, Maguire, Liam: \n\"A thalamo-cortico-thalamic neural mass model to study alph"
  "a rhythms in Alzheimer's \ndisease\", Neural Networks (2011), doi:10.1016/j.neunet.2011.02.009."
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      Floating		      off
      Location		      [6, 187, 567, 508]
      Open		      off
      NumInputPorts	      "1"
      TickLabels	      "on"
      ZoomMode		      "xonly"
      List {
	ListType		AxesTitles
	axes1			"%<SignalLabel>"
      }
      TimeRange		      "60"
      YMin		      "0.00016"
      YMax		      "0.000171"
      SaveToWorkspace	      on
      SaveName		      "thalamicoutput"
      DataFormat	      "StructureWithTime"
      LimitDataPoints	      off
      SampleInput	      on
      SampleTime	      "0.004"
    }
    Block {
      BlockType		      "M-S-Function"
      Name		      "VpotToFiringRate"
      Ports		      [1, 1]
      Position		      [535, 195, 585, 235]
      FontName		      "Arial"
      FontSize		      12
      FunctionName	      "mysigmoid_ver1"
      Parameters	      "2.5,560,0.006"
      MaskDisplay	      "plot(1./(1+exp(-0.75.*([1:25]-12))))"
      MaskIconFrame	      on
      MaskIconOpaque	      on
      MaskIconRotate	      "none"
      MaskPortRotate	      "default"
      MaskIconUnits	      "autoscale"
    }
    Block {
      BlockType		      "M-S-Function"
      Name		      "VpotToFiringRate1"
      Ports		      [1, 1]
      Position		      [740, 370, 790, 410]
      BlockMirror	      on
      NamePlacement	      "alternate"
      ShowName		      off
      FontName		      "Arial"
      FontSize		      12
      FunctionName	      "mysigmoid_ver1"
      Parameters	      "2.5,560,0.006"
      MaskDisplay	      "plot(1./(1+exp(-0.75.*([1:25]-12))))"
      MaskIconFrame	      on
      MaskIconOpaque	      on
      MaskIconRotate	      "none"
      MaskPortRotate	      "default"
      MaskIconUnits	      "autoscale"
    }
    Block {
      BlockType		      Scope
      Name		      "corticaloutput"
      Ports		      [1]
      Position		      [1620, 188, 1650, 222]
      FontName		      "Arial"
      FontSize		      12
      Floating		      off
      Location		      [589, 187, 1083, 497]
      Open		      off
      NumInputPorts	      "1"
      ZoomMode		      "yonly"
      List {
	ListType		AxesTitles
	axes1			"%<SignalLabel>"
      }
      YMin		      "0.00865"
      YMax		      "0.008825"
      SaveToWorkspace	      on
      SaveName		      "corticaloutput"
      DataFormat	      "StructureWithTime"
      LimitDataPoints	      off
      SampleInput	      on
      SampleTime	      "0.004"
    }
    Line {
      SrcBlock		      "Ctre"
      SrcPort		      1
      DstBlock		      "TCRpopSoma"
      DstPort		      1
    }
    Line {
      SrcBlock		      "SensInp"
      SrcPort		      1
      DstBlock		      "EPSP-Glu-retina"
      DstPort		      1
    }
    Line {
      SrcBlock		      "EPSP-Glu-retina"
      SrcPort		      1
      Points		      [30, 0]
      Branch {
	DstBlock		"Ctre"
	DstPort			1
      }
      Branch {
	DstBlock		"Cire"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "TCRpopSoma"
      SrcPort		      1
      Points		      [10, 0]
      Branch {
	DstBlock		"VpotToFiringRate"
	DstPort			1
      }
      Branch {
	Points			[0, -95]
	DstBlock		"Thalamicoutput"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "INpopSoma"
      SrcPort		      1
      DstBlock		      "TCR sigmoid1"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cire"
      SrcPort		      1
      Points		      [0, 20]
      DstBlock		      "INpopSoma"
      DstPort		      2
    }
    Line {
      SrcBlock		      "TCR sigmoid1"
      SrcPort		      1
      Points		      [-20, 0; 0, -145]
      DstBlock		      "IPSP-GABA-IN"
      DstPort		      1
    }
    Line {
      SrcBlock		      "IPSP-GABA-IN"
      SrcPort		      1
      Points		      [45, 0]
      Branch {
	Points			[65, 0; 0, -120]
	DstBlock		"Ctii"
	DstPort			1
      }
      Branch {
	DstBlock		"Cisi"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "TRNPopSoma"
      SrcPort		      1
      Points		      [0, 65]
      DstBlock		      "VpotToFiringRate1"
      DstPort		      1
    }
    Line {
      SrcBlock		      "VpotToFiringRate"
      SrcPort		      1
      Points		      [20, 0]
      DstBlock		      "EPSP-Glu-TCR"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cnte"
      SrcPort		      1
      DstBlock		      "TRNPopSoma"
      DstPort		      1
    }
    Line {
      SrcBlock		      "VpotToFiringRate1"
      SrcPort		      1
      DstBlock		      "IPSP-GABA-TRN"
      DstPort		      1
    }
    Line {
      SrcBlock		      "IPSP-GABA-TRN"
      SrcPort		      1
      Points		      [-70, 0]
      Branch {
	Points			[-195, 0; 0, -150]
	DstBlock		"Ctni"
	DstPort			1
      }
      Branch {
	Points			[0, 55; 435, 0; 0, -270; -45, 0]
	DstBlock		"Cnsi"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "Cnce"
      SrcPort		      1
      DstBlock		      "TRNPopSoma"
      DstPort		      2
    }
    Line {
      SrcBlock		      "Ctii"
      SrcPort		      1
      DstBlock		      "TCRpopSoma"
      DstPort		      2
    }
    Line {
      SrcBlock		      "Ctni"
      SrcPort		      1
      DstBlock		      "TCRpopSoma"
      DstPort		      3
    }
    Line {
      SrcBlock		      "Ctpe"
      SrcPort		      1
      Points		      [0, -10]
      DstBlock		      "TCRpopSoma"
      DstPort		      4
    }
    Line {
      SrcBlock		      "Cisi"
      SrcPort		      1
      Points		      [0, 35]
      DstBlock		      "INpopSoma"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cice"
      SrcPort		      1
      DstBlock		      "INpopSoma"
      DstPort		      3
    }
    Line {
      SrcBlock		      "Cnsi"
      SrcPort		      1
      DstBlock		      "TRNPopSoma"
      DstPort		      3
    }
    Line {
      SrcBlock		      "EPSP-Glu-TCR"
      SrcPort		      1
      Points		      [40, 0]
      Branch {
	Points			[0, 0]
	DstBlock		"Cnte"
	DstPort			1
      }
      Branch {
	Points			[0, -85; 265, 0; 0, 190]
	DstBlock		"Cpte"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "PyramidpopSoma"
      SrcPort		      1
      Points		      [15, 0]
      Branch {
	DstBlock		"TCR sigmoid2"
	DstPort			1
      }
      Branch {
	Points			[0, -95]
	DstBlock		"corticaloutput"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "TCR sigmoid2"
      SrcPort		      1
      DstBlock		      "EPSP-PY"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cxpe"
      SrcPort		      1
      DstBlock		      "TCR sigmoid3"
      DstPort		      1
    }
    Line {
      SrcBlock		      "TCR sigmoid3"
      SrcPort		      1
      DstBlock		      "EPSP-ExIN"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Clpe"
      SrcPort		      1
      DstBlock		      "TCR sigmoid4"
      DstPort		      1
    }
    Line {
      SrcBlock		      "TCR sigmoid4"
      SrcPort		      1
      DstBlock		      "IPSP-slowIN"
      DstPort		      1
    }
    Line {
      SrcBlock		      "IPSP-slowIN"
      SrcPort		      1
      Points		      [-75, 0]
      Branch {
	Points			[0, -80]
	DstBlock		"Cpli"
	DstPort			1
      }
      Branch {
	Points			[0, 55; 370, 0; 0, 70]
	DstBlock		"Cfli"
	DstPort			1
      }
    }
    Line {
      SrcBlock		      "Cfli"
      SrcPort		      1
      DstBlock		      "FastInhibINpopSoma"
      DstPort		      1
    }
    Line {
      SrcBlock		      "TCR sigmoid5"
      SrcPort		      1
      DstBlock		      "IPSP-fastIN"
      DstPort		      1
    }
    Line {
      SrcBlock		      "IPSP-fastIN"
      SrcPort		      1
      Points		      [-10, 0; 0, -275]
      DstBlock		      "Cpfi"
      DstPort		      1
    }
    Line {
      SrcBlock		      "EPSP-ExIN"
      SrcPort		      1
      Points		      [-70, 0]
      DstBlock		      "Cpxe"
      DstPort		      1
    }
    Line {
      SrcBlock		      "EPSP-PY"
      SrcPort		      1
      Points		      [20, 0]
      Branch {
	Points			[0, 125]
	Branch {
	  DstBlock		  "Clpe"
	  DstPort		  1
	}
	Branch {
	  Points		  [0, 220]
	  DstBlock		  "Cfpe"
	  DstPort		  1
	}
      }
      Branch {
	Points			[0, -200]
	DstBlock		"Cxpe"
	DstPort			1
      }
      Branch {
	Points			[35, 0; 0, 395; -1345, 0; 0, -215]
	Branch {
	  DstBlock		  "Ctpe"
	  DstPort		  1
	}
	Branch {
	  DstBlock		  "Cice"
	  DstPort		  1
	}
	Branch {
	  Points		  [595, 0; 0, -335; -155, 0]
	  DstBlock		  "Cnce"
	  DstPort		  1
	}
      }
    }
    Line {
      SrcBlock		      "FastInhibINpopSoma"
      SrcPort		      1
      DstBlock		      "TCR sigmoid5"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cfpe"
      SrcPort		      1
      DstBlock		      "FastInhibINpopSoma"
      DstPort		      2
    }
    Line {
      SrcBlock		      "ExtrinsicInp"
      SrcPort		      1
      Points		      [20, 0; 0, 55]
      DstBlock		      "EPSP-corticocorticalinput"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cpxe"
      SrcPort		      1
      Points		      [0, 10]
      DstBlock		      "PyramidpopSoma"
      DstPort		      1
    }
    Line {
      SrcBlock		      "EPSP-corticocorticalinput"
      SrcPort		      1
      DstBlock		      "Cpce"
      DstPort		      1
    }
    Line {
      SrcBlock		      "Cpfi"
      SrcPort		      1
      DstBlock		      "PyramidpopSoma"
      DstPort		      4
    }
    Line {
      SrcBlock		      "Cpli"
      SrcPort		      1
      DstBlock		      "PyramidpopSoma"
      DstPort		      5
    }
    Line {
      SrcBlock		      "Cpte"
      SrcPort		      1
      DstBlock		      "PyramidpopSoma"
      DstPort		      3
    }
    Line {
      SrcBlock		      "Cpce"
      SrcPort		      1
      DstBlock		      "PyramidpopSoma"
      DstPort		      2
    }
    Annotation {
      Position		      [195, 151]
      FontName		      "Arial"
      FontSize		      12
    }
  }
}
# Finite State Machines
#
#    Stateflow Version 7.1 (R2009a) dated Jan 28 2009, 05:16:58
#
#


Stateflow {
  machine {
    id			    1
    name		    "basab_thalamocorticothalamicCkt"
    created		    "28-Apr-2010 11:09:40"
    isLibrary		    0
    firstTarget		    2
    sfVersion		    71014000.000008
  }
  target {
    id			    2
    name		    "sfun"
    codeFlags		    ""
    machine		    1
    linkNode		    [1 0 0]
  }
}

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