XPP model

This model was converted from XPP ode format to SBML using sbmlutils-0.1.5a6.

##########################################################################
#  Simple model of circadian clock with PNF structure
# Generated: 12-Sep-2012 00:40:24
# Generated by Jae Kyoung Kim and Daniel Forger by using SBtoolbox2
# This file can be used by XPPAUT for simulation and
# bifurcation analysis.
##########################################################################

########################################################
# DIFFERENTIAL EQUATIONS
########################################################
M'=ao*(A-P-Kd+((A-P-Kd)^2+4*A*Kd)^0.5)/(2*A)-bo*M
Pc'=at*M-bt*Pc
P'=ah*Pc-bh*P
R'=ro*(A-P-Kd+((A-P-Kd)^2+4*A*Kd)^0.5)/(2*A)-do*R
A'=rt*R-dt*A

########################################################
# PARAMETERS
########################################################
param ao=1
param at=1
param ah=1
param bo=1
param bt=1
param bh=1
param ro=1
param rt=0.0395
param do=0.2
param dt=0.2
param Kd=1e-05

########################################################
# FUNCTIONS
########################################################
power(x,y)=x^y

########################################################
# INITIAL CONDITIONS
########################################################
M(0)=0.1
Pc(0)=0.1
P(0)=0.1
R(0)=0.1
A(0)=0.1

########################################################
# INTEGRATOR SETTINGS AND DONE
########################################################
@ method=stiff
@ bounds=100000
@ maxstor=20000
done
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Copyright © 2017 Matthias Koenig

Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:

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  2. Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
This model is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.


Model :

id
name
time
substance
extent
volume
area
length
Access SBML model  L3V1

FunctionDefinitions [4] name math sbo cvterm
max minimum x y x x y y
min maximum x y x x y y
heav heavyside x 0 x 0 0.5 x 0 1 x 0 0
mod modulo x y x y x y x 0 y 0 x y x y

Parameters [17] name constant value unit derived unit sbo cvterm
ao ao = 1 1.0 None
at at = 1 1.0 None
ah ah = 1 1.0 None
bo bo = 1 1.0 None
bt bt = 1 1.0 None
bh bh = 1 1.0 None
ro ro = 1 1.0 None
rt rt = 0.0395 0.0395 None
do do = 0.2 0.2 None
dt dt = 0.2 0.2 None
kd kd = 1e-05 1e-05 None
m m = 0.1 0.1 None
pc pc = 0.1 0.1 None
p p = 0.1 0.1 None
r r = 0.1 0.1 None
a a = 0.1 0.1 None
t model time 0.0 dimensionless None

Rules [6]   assignment name derived units sbo cvterm
d m/dt = ao a p kd a p kd 2 4 a kd 0.5 2 a bo m None
d pc/dt = at m bt pc None
d p/dt = ah pc bh p None
d r/dt = ro a p kd a p kd 2 4 a kd 0.5 2 a do r None
d a/dt = rt r dt a None
t = time None