Patent ID: 7751981

Claim:
A computer readable storage medium or media, comprising: (a) a data structure contained on a computer readable storage medium or media that is read by a computer, said data structure comprising a stoichiometric matrix relating a plurality of Saccharomyces cerevisiae reactants to a plurality of Saccharomyces cerevisiae reactions, wherein each of said Saccharomyces cerevisiae reactions comprises a reactant identified as a substrate of the reaction, a reactant identified as a product of the reaction and a stoichiometric coefficient relating said substrate and said product, wherein at least one of said Saccharomyces cerevisiae reactions is annotated to indicate an associated gene, and wherein a plurality of chemically and electrochemically balanced reactions are assigned to a plurality of different membranous compartments; (b) a gene database comprising information characterizing said associated gene; (c) a constraint set for said plurality of Saccharomyces cerevisiae reactions; (d) a program contained on said computer readable storage medium or media comprising executable commands using said data structure for determining at least one flux distribution for said plurality of chemically and electrochemically balanced reactions across said plurality of different membranous compartments that minimizes or maximizes an objective function when said constraint set is applied to said data structure, wherein said at least one flux distribution is predictive of a Saccharomyces cerevisiae physiological function, and (e) said program contained on said computer readable storage medium or media comprising executable commands for visually displaying said at least one resulting flux distribution to a user.