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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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BlockType Gain
Name "Ctii"
Position [350, 167, 415, 203]
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Gain "15.45"
ParameterDataTypeMode "Inherit via internal rule"
ParameterDataType "fixdt(1, 16)"
ParameterScaling "2^0"
ParamDataTypeStr "Inherit: Inherit via internal rule"
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^0"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Gain
Name "Ctni"
Position [345, 221, 410, 259]
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Gain "15.45"
ParameterDataTypeMode "Inherit via internal rule"
ParameterDataType "fixdt(1, 16)"
ParameterScaling "2^0"
ParamDataTypeStr "Inherit: Inherit via internal rule"
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^0"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Gain
Name "Ctpe"
Position [372, 310, 418, 360]
BlockRotation 270
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Gain "62"
ParameterDataTypeMode "Inherit via internal rule"
ParameterDataType "fixdt(1, 16)"
ParameterScaling "2^0"
ParamDataTypeStr "Inherit: Inherit via internal rule"
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^0"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Gain
Name "Ctre"
Position [355, 113, 415, 147]
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Gain "7.1"
ParameterDataTypeMode "Inherit via internal rule"
ParameterDataType "fixdt(1, 16)"
ParameterScaling "2^0"
ParamDataTypeStr "Inherit: Inherit via internal rule"
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^0"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Gain
Name "Cxpe"
Position [1600, 84, 1655, 116]
BlockMirror on
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Gain "135"
ParameterDataTypeMode "Inherit via internal rule"
ParameterDataType "fixdt(1, 16)"
ParameterScaling "2^0"
ParamDataTypeStr "Inherit: Inherit via internal rule"
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^0"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType ZeroPole
Name "EPSP-ExIN"
Position [1315, 76, 1410, 124]
BlockMirror on
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-40 -40]"
Gain "[40* 0.0027]"
}
Block {
BlockType ZeroPole
Name "EPSP-Glu-TCR"
Position [625, 174, 720, 216]
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-100 -100]"
Gain "[0.00325*100]"
}
Block {
BlockType ZeroPole
Name "EPSP-Glu-retina"
Position [155, 109, 250, 151]
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-100 -100]"
Gain "[0.00325*100]"
}
Block {
BlockType ZeroPole
Name "EPSP-PY"
Position [1585, 276, 1680, 324]
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-40 -40]"
Gain "[40* 0.0027]"
}
Block {
BlockType ZeroPole
Name "EPSP-corticocorticalinput"
Position [1210, 228, 1295, 272]
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-40 -40]"
Gain "[40* 0.0027]"
}
Block {
BlockType "M-S-Function"
Name "ExtrinsicInp"
Description "Input to the model with or without noise. The order of input parameters in the Dialog box is:"
" \nmean, standard deviation, length of signal,flag,constant. "
" \nIf flag is 0, the input is a constant devoid of any noise. However, if flag is 1, t"
"he noise is added to the signal."
Ports [0, 1]
Position [1100, 176, 1140, 214]
FontName "Arial"
FontSize 12
FunctionName "myinput_ver1"
Parameters "30,5,60000,1"
MaskDisplay "plot(312+randn(1,25))"
MaskIconFrame on
MaskIconOpaque on
MaskIconRotate "none"
MaskPortRotate "default"
MaskIconUnits "autoscale"
}
Block {
BlockType Sum
Name "FastInhibINpopSoma"
Ports [2, 1]
Position [1430, 585, 1460, 665]
BlockMirror on
FontName "Arial"
FontSize 12
Inputs "-+"
CollapseMode "Specified dimension"
CollapseDim "4"
InputSameDT off
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^-10"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Sum
Name "INpopSoma"
Ports [3, 1]
Position [165, 405, 210, 495]
BlockMirror on
FontName "Arial"
FontSize 12
Inputs "-++"
CollapseMode "Specified dimension"
CollapseDim "4"
InputSameDT off
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^-10"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType ZeroPole
Name "IPSP-GABA-IN"
Position [90, 284, 185, 326]
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-40 -40]"
Gain "[0.022*40]"
}
Block {
BlockType ZeroPole
Name "IPSP-GABA-TRN"
Position [590, 369, 685, 411]
BlockMirror on
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-40 -40]"
Gain "[0.022*40]"
}
Block {
BlockType ZeroPole
Name "IPSP-fastIN"
Position [1190, 602, 1300, 648]
BlockMirror on
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-300 -300]"
Gain "[300*0.039]"
}
Block {
BlockType ZeroPole
Name "IPSP-slowIN"
Position [1295, 457, 1425, 503]
BlockMirror on
FontName "Arial"
FontSize 12
Zeros "[]"
Poles "[-20 -20]"
Gain "[20*0.0045]"
}
Block {
BlockType Sum
Name "PyramidpopSoma"
Ports [5, 1]
Position [1400, 179, 1435, 421]
FontName "Arial"
FontSize 12
Inputs "+++--"
CollapseMode "Specified dimension"
CollapseDim "4"
InputSameDT off
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^-10"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType "M-S-Function"
Name "SensInp"
Description "Input to the model with or without noise. The order of input parameters in the Dialog box is:"
" \nmean, standard deviation, length of signal,flag,constant. "
" \nIf flag is 0, the input is a constant devoid of any noise. However, if flag is 1, t"
"he noise is added to the signal."
Ports [0, 1]
Position [60, 111, 100, 149]
FontName "Arial"
FontSize 12
FunctionName "myinput_ver1"
Parameters "11,5,60000,1"
MaskDisplay "plot(312+randn(1,25))"
MaskIconFrame on
MaskIconOpaque on
MaskIconRotate "none"
MaskPortRotate "default"
MaskIconUnits "autoscale"
}
Block {
BlockType "M-S-Function"
Name "TCR sigmoid1"
Ports [1, 1]
Position [80, 432, 130, 468]
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 "M-S-Function"
Name "TCR sigmoid2"
Ports [1, 1]
Position [1480, 279, 1535, 321]
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 "M-S-Function"
Name "TCR sigmoid3"
Ports [1, 1]
Position [1480, 80, 1540, 120]
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 "M-S-Function"
Name "TCR sigmoid4"
Ports [1, 1]
Position [1465, 461, 1515, 499]
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 "M-S-Function"
Name "TCR sigmoid5"
Ports [1, 1]
Position [1335, 604, 1390, 646]
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 Sum
Name "TCRpopSoma"
Ports [4, 1]
Position [445, 104, 500, 321]
FontName "Arial"
FontSize 12
Inputs "+--+"
CollapseMode "Specified dimension"
CollapseDim "4"
InputSameDT off
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^-10"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Sum
Name "TRNPopSoma"
Ports [3, 1]
Position [727, 290, 943, 320]
BlockRotation 270
BlockMirror on
NamePlacement "alternate"
FontName "Arial"
FontSize 12
Inputs "++-"
CollapseMode "Specified dimension"
CollapseDim "4"
InputSameDT off
OutDataTypeMode "Inherit via internal rule"
OutDataType "fixdt(1, 16)"
OutScaling "2^-10"
OutDataTypeStr "Inherit: Inherit via internal rule"
SaturateOnIntegerOverflow off
}
Block {
BlockType Scope
Name "Thalamicoutput"
Ports [1]
Position [660, 106, 695, 134]
FontName "Arial"
FontSize 12
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]
}
}