SBML model of the interlocked feedback loop network

The model describes the three loop arabidopsis clock mode. It provides initial conditions, parameter values and rules for the production rates of the following species: LHY mRNA (cLm), cytoplasmic LHY (cLc), nuclear LHY (cLn), TOC1 mRNA (cTm), cytoplasmic TOC1 (cTc), nuclear TOC1 (cTn), X mRNA (cXm), cytoplasmic X (cXc), nuclear X (cXn), Y mRNA (cYm), cytoplasmic Y (cYc), nuclear Y (cYn), nuclear P (cPn), APRR7/9 mRNA, cytoplasmic APRR7/9, and nuclear APRR7/9. The model was validated using the SBML Toolbox for Matlab.

Defines light value depending on time of day

tod Lmin tod dayLength Lmax

Rate of production of LHY mRNA

g0 alpha g0 alpha cAn alpha LD timeOfDay q1 cPn n0 n1 cXn a g1 a cXn a m1 cLm k1 cLm

Rate of production of cytoplasmic LHY

p1 cLm r1 cLc r2 cLn m2 cLc k2 cLc

Rate of production of nuclear LHY

r1 cLc r2 cLn m3 cLn k3 cLn

Rate of production of TOC1 mRNA

n2 cYn b g2 b cYn b g3 c g3 c cLn c m4 cTm k4 cTm

Rate of production of cytoplasmic TOC1

p2 cTm r3 cTc r4 cTn Lmax LD timeOfDay m5 m6 cTc k5 cTc

Rate of production of nuclear TOC1

r3 cTc r4 cTn Lmax LD timeOfDay m7 m8 cTn k6 cTn

Rate of production of X mRNA

n3 cTn d g4 d cTn d m9 cXm k7 cXm

Rate of production of cytoplasmic X

p3 cXm r5 cXc r6 cXn m10 cXc k8 cXc

Rate of production of nuclear X

r5 cXc r6 cXn m11 cXn k9 cXn

Rate of production of Y mRNA

LD timeOfDay q2 cPn LD timeOfDay n4 n5 g5 e g5 e cTn e g6 f g6 f cLn f m12 cYm k10 cYm

Rate of production of cytoplasmic Y

p4 cYm r7 cYc r8 cYn m13 cYc k11 cYc

Rate of production of nuclear Y

r7 cYc r8 cYn m14 cYn k12 cYn

Rate of production of nuclear P

Lmax LD timeOfDay p5 m15 cPn k13 cPn q3 LD timeOfDay cPn

Rate of production of APRR7/9 mRNA

LD timeOfDay q4 cPn n6 cLn g g7 g cLn g m16 cAm k14 cAm

Rate of production of cytoplasmic APRR7/9

p6 cAm r9 cAc r10 cAn m17 cAc k15 cAc

Rate of production of nuclear APRR7/9

r9 cAc r10 cAn m18 cAn k16 cAn

Flow of time

1

If time of day reaches end of day, set back to zero

timeOfDay CP

0