Table 4

Comparing constraints generated by FBA and by our approach
cpd FBA constraint Our constraint
A r1+r3=0
B r1+r2=0 r1+r2>0 ∨ r1=r2=0
C r1r2=0 r1r2>0 ∨ r1=r2=0
D r1=0 r1>0 ∨ r1=0
E r2r5=0 r2>0
F r2+r4=0

For a reaction network consisting of two reactions, r1:A+BC+D and r2:C+FB+E, nutrients {A,F} and essential compound E, FBA generates the constraints in the second Column (FBA) and determines growth by maximizing r5 subject to these constraints and subject to bounds on influx of nutrients, 0≤r3r3max and 0≤r4r4max. We generate four constraints, shown in the third column, out of which three are disjunctive. Note that we do not use the dummy reactions r3:→A, r4:→F and r5:E→.

Eker et al.

Eker et al. BMC Bioinformatics 2013 14:114   doi:10.1186/1471-2105-14-114

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