XPP model
This model was converted from XPP ode format to SBML using sbmlutils-0.1.5a6
.
# Soma is Hodgkin-Huxley p Ek=-77,Ena=50, El=-54.4 p gl=.3,gkdr=36,gna=120 p i=11 p C=1. p amphi=.1,amhalf=-40,amwidth=10 p bmphi=4,bmhalf=-65,bmwidth=18 p ahphi=0.07,ahhalf=-65,ahwidth=20 p bhphi=1,bhhalf=-35,bhwidth=10 p anphi=.01,anhalf=-55,anwidth=10 p bnphi=.125,bnhalf=-65,bnwidth=80 # functions am(v)=amphi*(v-amhalf)/(1-exp(-(v-amhalf)/amwidth)) bm(v)=bmphi*exp(-(v-bmhalf)/bmwidth) ah(v)=ahphi*exp(-(v-ahhalf)/ahwidth) bh(v)=bhphi/(1+exp(-(v-bhhalf)/bhwidth)) an(v)=anphi*(v-anhalf)/(1-exp(-(v-anhalf)/anwidth)) bn(v)=bnphi*exp(-(v-bnhalf)/bnwidth) #currents ina(v,m,h)=gna*m^3*h*(v-Ena) ikdr(v,n)=gkdr*n^4*(v-Ek) il(v)=gl*(v-El) #diff. equ. v'=(i-(ina(v,m,h)+ikdr(v,n)+il(v))+p0*pulse(t-taup)+eps*(u1-v)/dx)/C m'=am(v)*(1-m)-bm(v)*m n'=an(v)*(1-n)-bn(v)*n h'=ah(v)*(1-h)-bh(v)*h ## synapse parameter taur=1,taud=3,thresh=-30 x'=(-x+.5*(1+tanh((v-thresh)/3.0)))/taur y'=(-y+x)/taud init x=.001, y=.001 Ild(V)=V-El # cable equation u1'=((lambda/dx)^2*(u2-2*u1+v)-Ild(u1))/tau+p1*pulse(t-taup) u[2..50]'= ((lambda/dx)^2*(u[j+1]-2*u[j]+u[j-1])-Ild(u[j]))/tau +p[j]*pulse(t-taup) u51=(c1+b1*u50/dx)/(a1+b1/dx) par lambda=1,tau=10,dx=.1,c1=0,a1=0,b1=1,c0=0,a0=0,b0=1,eps=.025 pulse(t)=heav(t)*heav(sigma-t) par sigma=.05 par t0=14.45 aux prc=t0-t taup'=0 p p[0..50]=0 @ total=300,xlo=0,xhi=300,ylo=-100,yhi=60,dt=0.05,bounds=10000000 d
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Copyright © 2017 Matthias Koenig
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Model :
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type | FunctionDefinitions [15] | name | math | sbo | cvterm |
---|---|---|---|---|---|
FunctionDefinition | max
|
minimum | |||
FunctionDefinition | min
|
maximum | |||
FunctionDefinition | heav
|
heavyside | |||
FunctionDefinition | mod
|
modulo | |||
FunctionDefinition | am
|
||||
FunctionDefinition | bm
|
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FunctionDefinition | ah
|
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FunctionDefinition | bh
|
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FunctionDefinition | an
|
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FunctionDefinition | bn
|
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FunctionDefinition | ina
|
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FunctionDefinition | ikdr
|
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FunctionDefinition | il
|
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FunctionDefinition | ild
|
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FunctionDefinition | pulse
|
type | Parameters [54] | name | constant | value | unit | derived unit | sbo | cvterm |
---|---|---|---|---|---|---|---|---|
Parameter | ek
|
ek = -77 | F | -77.0 | None | |||
Parameter | ena
|
ena = 50 | F | 50.0 | None | |||
Parameter | el
|
el = -54.4 | F | -54.4 | None | |||
Parameter | gl
|
gl = .3 | F | 0.3 | None | |||
Parameter | gkdr
|
gkdr = 36 | F | 36.0 | None | |||
Parameter | gna
|
gna = 120 | F | 120.0 | None | |||
Parameter | i
|
i = 11 | F | 11.0 | None | |||
Parameter | c
|
c = 1. | F | 1.0 | None | |||
Parameter | amphi
|
amphi = .1 | F | 0.1 | None | |||
Parameter | amhalf
|
amhalf = -40 | F | -40.0 | None | |||
Parameter | amwidth
|
amwidth = 10 | F | 10.0 | None | |||
Parameter | bmphi
|
bmphi = 4 | F | 4.0 | None | |||
Parameter | bmhalf
|
bmhalf = -65 | F | -65.0 | None | |||
Parameter | bmwidth
|
bmwidth = 18 | F | 18.0 | None | |||
Parameter | ahphi
|
ahphi = 0.07 | F | 0.07 | None | |||
Parameter | ahhalf
|
ahhalf = -65 | F | -65.0 | None | |||
Parameter | ahwidth
|
ahwidth = 20 | F | 20.0 | None | |||
Parameter | bhphi
|
bhphi = 1 | F | 1.0 | None | |||
Parameter | bhhalf
|
bhhalf = -35 | F | -35.0 | None | |||
Parameter | bhwidth
|
bhwidth = 10 | F | 10.0 | None | |||
Parameter | anphi
|
anphi = .01 | F | 0.01 | None | |||
Parameter | anhalf
|
anhalf = -55 | F | -55.0 | None | |||
Parameter | anwidth
|
anwidth = 10 | F | 10.0 | None | |||
Parameter | bnphi
|
bnphi = .125 | F | 0.125 | None | |||
Parameter | bnhalf
|
bnhalf = -65 | F | -65.0 | None | |||
Parameter | bnwidth
|
bnwidth = 80 | F | 80.0 | None | |||
Parameter | taur
|
taur = 1 | F | 1.0 | None | |||
Parameter | taud
|
taud = 3 | F | 3.0 | None | |||
Parameter | thresh
|
thresh = -30 | F | -30.0 | None | |||
Parameter | x
|
x = .001 | F | 0.001 | None | |||
Parameter | y
|
y = .001 | F | 0.001 | None | |||
Parameter | lambda
|
lambda = 1 | F | 1.0 | None | |||
Parameter | tau
|
tau = 10 | F | 10.0 | None | |||
Parameter | dx
|
dx = .1 | F | 0.1 | None | |||
Parameter | c1
|
c1 = 0 | F | 0.0 | None | |||
Parameter | a1
|
a1 = 0 | F | 0.0 | None | |||
Parameter | b1
|
b1 = 1 | F | 1.0 | None | |||
Parameter | c0
|
c0 = 0 | F | 0.0 | None | |||
Parameter | a0
|
a0 = 0 | F | 0.0 | None | |||
Parameter | b0
|
b0 = 1 | F | 1.0 | None | |||
Parameter | eps
|
eps = .025 | F | 0.025 | None | |||
Parameter | sigma
|
sigma = .05 | F | 0.05 | None | |||
Parameter | t0
|
t0 = 14.45 | F | 14.45 | None | |||
Parameter | p[0..50] = 0 | F | 0.0 | None | ||||
Parameter | v
|
F | 0.0 | dimensionless | None | |||
Parameter | m
|
F | 0.0 | dimensionless | None | |||
Parameter | n
|
F | 0.0 | dimensionless | None | |||
Parameter | h
|
F | 0.0 | dimensionless | None | |||
Parameter | u1
|
F | 0.0 | dimensionless | None | |||
Parameter | F | 0.0 | dimensionless | None | ||||
Parameter | taup
|
F | 0.0 | dimensionless | None | |||
Parameter | u51
|
F | 0.0 | dimensionless | None | |||
Parameter | prc
|
F | 0.0 | dimensionless | None | |||
Parameter | t
|
model time | F | 0.0 | dimensionless | None |
type | Rules [12] | assignment | name | derived units | sbo | cvterm | |
---|---|---|---|---|---|---|---|
Rule | d v/dt
|
= | None | ||||
Rule | d m/dt
|
= | None | ||||
Rule | d n/dt
|
= | None | ||||
Rule | d h/dt
|
= | None | ||||
Rule | d x/dt
|
= | None | ||||
Rule | d y/dt
|
= | None | ||||
Rule | d u1/dt
|
= | None | ||||
Rule | = | None | |||||
Rule | d taup/dt
|
= | None | ||||
Rule | u51
|
= | None | ||||
Rule | prc
|
= | None | ||||
Rule | t
|
= | None |