Figure 2

Up-regulated module 1 from ambient analysis over yeast diauxic shift. Showing the complete set of reactions and metabolites inferred by ambient to be present in the highest scoring (and largest) coordinately changed part of metabolism. Reactions outlined in black are indicated in the DeRisi analysis of the same data to be the upregulated part of metabolism responsible for carbon rerouting in central carbon metabolism due to the diauxic shift induced in that experiment [13]. Orange coloured nodes are only found in the ambient module, whilst those coloured brown are also present in a module returned by GiGA. Metabolites in different compartments are explicitly treated as different metabolites in metabolic models such as this, so can be seen more than once (along with an indication of the compartment for each one).