| Citation |
|---|
| Vilar JMG, Kueh HY, Barkai N, Leibler S, (2002) . Mechanisms of noise resistance in genetic oscillators, PNAS, 99(9):5988-5992. http://www.pnas.org/cgi/content/abstract/ 99/9/5988 |
| Description |
|---|
| A minimal model of genomically based oscillation, based on two mutually interacting genes, an activator and a repressor. Postive feedback is provided by the activator protein, which binds to the promotors of both the activator and the repressor genes. Negative feedback is provided by the repressor protein which binds to the activator protein. |
| Rate constant | Reaction |
|---|---|
| alphaA = 50 | DA -> DA + MA |
| alphaAp = 500 | DAp -> DAp + MA |
| alphaR = 0.01 | DR -> DR + MR |
| alphaRp = 50 | DRp -> DRp + MR |
| betaA = 50 | MA -> A + MA |
| betaR = 5 | MR -> MR + R |
| gammaA = 1 | A + DA -> DAp |
| gammaC = 2 | A + R -> C |
| gammaR = 1 | A + DR -> DRp |
| deltaA = 1 | A -> EmptySet |
| deltaA = 1 | C -> R |
| deltaMA = 10 | MA -> EmptySet |
| deltaMR = 0.5 | MR -> EmptySet |
| deltaR = 0.2 | R -> EmptySet |
| thetaA = 50 | DAp -> A + DA |
| thetaR = 100 | DRp -> A + DR |
| Variable | IC | ODE |
|---|---|---|
| A | 0 | A'[t] == -(deltaA*A[t]) - gammaA*A[t]*DA[t] + thetaA*DAp[ t] - gammaR*A[t]*DR[t] + thetaR*DRp[t] + betaA*MA[t] - gammaC*A[t]*R[t] |
| C | 0 | C'[t] == -(deltaA*C[t]) + gammaC*A[t]*R[t] |
| DA | 1 | DA'[t] == -(gammaA*A[t]*DA[t]) + thetaA*DAp[t] |
| DAp | 0 | DAp'[t] == gammaA*A[t]*DA[t] - thetaA*DAp[t] |
| DR | 1 | DR'[t] == -(gammaR*A[t]*DR[t]) + thetaR*DRp[t] |
| DRp | 0 | DRp'[t] == gammaR*A[t]*DR[t] - thetaR*DRp[t] |
| MA | 0 | MA'[t] == alphaA*DA[t] + alphaAp*DAp[t] - deltaMA*MA[t] |
| MR | 0 | MR'[t] == alphaR*DR[t] + alphaRp*DRp[t] - deltaMR*MR[t] |
| R | 0 | R'[t] == deltaA*C[t] + betaR*MR[t] - deltaR*R[t] - gammaC*A[t]*R[t] |