This query allows to find a set of metabolic genes whose expression manipulation, in a specified medium, is predicted to optimise the production of a given metabolite.

This query requires the definition of: a metabolite to be optimised, a model, a growth medium, and a metric evaluating the predicted metabolite production by which the list of metabolic genes is ranked (metabolite exchange flux, Biomass-Product Coupled Yield (BPCY), or Product Yield with Minimum Biomass (PYMB)).

The output is a table of the genes whose expression manipulation is predicted to optimise the production of the selected metabolite, as provided by in silico simulations using the selected Genome-scale Metabolic Model and the selected growth medium.

The impact of various changes in gene expression on the metabolite production is displayed in the table, from full gene knockout (KO) or decreased gene expression (UE, Under-Expression, from 0 to 0.75-fold the wild-type levels), to increased gene expression (OE, Over-Expression, from 1.25 to 1.5-fold the wild-type levels). The final columns highlight the highest level of the metabolite production obtained by the manipulation of expression of each gene, followed by the "View" link, which allows to obtain details on the changes imposed on reaction fluxes by said manipulations.