mut.E.old: Old method for mutation of enzyme concentrations
In SimEvolEnzCons: Simulation of Evolution of Enzyme Under Constraints

Description Usage Arguments Details Value References See Also Examples

Computes the mutant value of enzyme concentrations with the old method (see Lion et al. 2004).

1	mut.E.old(E_fun,i_fun,nu_fun,correl_fun,beta_fun=NULL,typ_E=1)

`E_fun`	Numeric vector of enzyme concentrations (resident)
`i_fun`	Numeric value corresponding to number of the enzyme targeted by the mutation
`nu_fun`	Numeric value of canonical mutation effect
`correl_fun`	Character string indicating the abbreviation of the constraint applied on the system
`beta_fun`	Matrix of co-regulation coefficients
`typ_E`	Numeric for mutation method. Authorized values: 1 or 2. Default is 1.

This mutation method is named old, because it was used the first one used for evolution simulation. Some improvements has been made since.

The main difference with mutation function mut.E.direct is the method to compute mutant values under competition constraint. In this function mut.E.old, canonical effect ν is redistributed only on enzymes different from the target one, whereas in mut.E.direct, mutation canonical effect is redistributed between all enzymes, including the target one.

Moreover, computation method in mut.E.direct is simplified.

Last, this old method includes two model of mutations: additive and multiplicative.

Additive method (typ_E=1): mutant concentration is the sum of the resident one plus size of mutation ν
Multiplicative method (typ_E=2): mutant concentration is the product of the resident one and 1+ν

Default is method 1.

In mut.E.direct, only method 1 is kept.

Numeric vector corresponding to mutant value of enzyme concentrations

Lion, S., F. Gabriel, B. Bost, J. Fiévet, C. Dillmann, and D. De Vienne, 2004. An extension to the metabolic control theory taking into account correlations between enzyme concentrations. European Journal of Biochemistry 271:4375–4391.

See function mut.E.direct for a direct computation method of mutation.

E <- c(30,30,30)
beta <- matrix(c(1,10,5,0.1,1,0.5,0.2,2,1),nrow=3)
correl <- "RegPos"
mu <- 1 #canonical size of mutation
i <- 3 #enzyme directly targeted by mutation

mut.E.old(E,i,mu,correl,beta)