# lac operon (3-variable model) # # x1 = M (mRNA), x2 = E (gene products), x3 = L (lactose) MODEL NAME: toy_model SIMULATION NAME: sim1 NUMBER OF VARIABLES: 3 VARIABLE NAMES: x1 x2 x3 NUMBER OF STATES: 2 2 2 SPEED OF VARIABLES: 1 1 1 f1 = (1+Ge)*(x3*Le+x3+Le) f2 = x1 f3 = (1+Ge)*(x2*Le+x3*(1+x2)) ##======================================================================== # lac operon (deficient model) # # x1 = M (mRNA), x2 = B (beta-galactosidase), x3 = A (allolactose) # x4 = L (lactose), x5 = P (transporter protein, lac permease) MODEL NAME: deficient_model SIMULATION NAME: sim1 NUMBER OF VARIABLES: 5 VARIABLE NAMES: x1 x2 x3 x4 x5 NUMBER OF STATES: 2 2 2 2 2 SPEED OF VARIABLES: 1 1 1 1 1 f1 = x3 f2 = x1 f3 = x3+x2*x4+x2*x3*x4 f4 = x5+x4*(1+x2)+x5*x4*(1+x2) f5 = x1 ##======================================================================== # lac operon (9-variable model) # # x1 = M (mRNA), x2 = P (lac permease), x3 = B (beta-galactosidase) # x4 = C (cAMP-CAP complex), x5 = R (repressor protein) # x6 = A (high allolactose), x7 = Am (medium allolactose) # x8 = L (high lactose), x9 = Lm (medium lactose) # Parameters: Le = extracellular lactose, Ge = extracellular glucose MODEL NAME: 9-var_model SIMULATION NAME: sim1 NUMBER OF VARIABLES: 9 VARIABLE NAMES: x1 x2 x3 x4 x5 x6 x7 x8 x9 NUMBER OF STATES: 2 2 2 2 2 2 2 2 2 SPEED OF VARIABLES: 1 1 1 1 1 1 1 1 1 f1 = (1+x5)*x4 f2 = x1 f3 = x1 f4 = 1+Ge f5 = (1+x6)*(1+x7) f6 = x8*x3 f7 = (x6*x8+x6+x8)*x9+(x6*x8+x6+x8)+x9 f8 = (1+Ge)*x2*Le f9 = (1+Ge)*(x8*Le+x8+Le) ##======================================================================== # lac operon (10-variable model with bistability) # # x1 = M (mRNA), x2 = P (lac permease), x3 = B (beta-galactosidase) # x4 = C (cAMP-CAP complex), # x5 = R (high repressor protein), x6 = Rm (medium repressor protein) # x7 = A (high allolactose), x8 = Am (medium allolactose) # x9 = L (high lactose), x10 = Lm (medium lactose) # Parameters: Ge = extracellular glucose # Le = high extracellular lactose, Lem = medium extracellular lactose MODEL NAME: 10-var_model SIMULATION NAME: sim1 NUMBER OF VARIABLES: 10 VARIABLE NAMES: x1 x2 x3 x4 x5 x6 x7 x8 x9 x10 NUMBER OF STATES: 2 2 2 2 2 2 2 2 2 2 SPEED OF VARIABLES: 1 1 1 1 1 1 1 1 1 1 f1 = x4*(x5+1)*(x6+1) f2 = x1 f3 = x1 f4 = Ge+1 f5 = (x7+1)*(x8+1) f6 = (x7+1)*(x8+1)+x5+(x7+1)*(x8+1)*x5 f7 = x3*x9 f8 = x9+x10+x9*x10 f9 = x2*(Ge+1)*Le f10 = (x2*Lem+Le+x2*Lem*Le)*(Ge+1) ##========================================================================