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Table 3 Optimization results for the model of heat shock response in yeast

From: Identifying quantitative operation principles in metabolic pathways: a systematic method for searching feasible enzyme activity patterns leading to cellular adaptive responses

Objective function V TRE V NADPH V ATP Cost V TRE V NADPH V ATP Cost
Goal (Maximize/Minimize) Max Max Max Min Max Max Max Min
Constrains in[20] No No No No Yes Yes Yes Yes
Enzymes (Chanfe-fold)         
HTX 20.00 20.00 20.00 1.00 10.66 12.77 19.21 4.52
GLK 0.50 3.00 0.50 1.00 4.58 5.42 8.15 2.42
PFK 0.25 0.25 20.00 1.00 1.00 1.00 2.34 1.00
TDH 0.25 0.25 0.25 1.00 5.11 2.10 4.92 1.46
PYK 20.00 20.00 20.00 1.00 10.54 5.54 11.78 3.07
TPS+GOL 20.00 0.25 0.25 1.00 20.00 2.34 2.34 4.93
GADP 0.25 20.00 0.25 1.00 1.71 20.00 1.71 1.79
Glycerol production 0.25 0.25 0.25 1.00 1.00 1.00 1.00 1.00
ATPase 0.25 0.25 20.00 1.00 1.81 0.62 2.04 1.00
Metabolites (mM)         
Glucose (internal) 0.75 0.08 22.67 0.06 0.04 0.04 0.04 0.04
Glucose-6-P 278.04 160.28 0.02 0.23 20.22 20.22 20.22 7.95
Fructose-1,6-P 669.48 510.46 164486.70 14.36 22.86 22.86 22.86 22.86
PEP 0.00 4.9 × 10-4 1.7 × 10-3 3.5 × 10-3 0.01 8.3 × 10-3 0.01 0.01
ATP 20.54 13.10 6.6 × 10-5 0.03 2.47 6.77 6.77 3.63
Fluxes (mM min -1 )         
V TRE 2.08 0.02 1.3 × 10-5 3.6 × 10-4 0.26 0.03 0.03 0.03
V NADPH 0.59 46.21 0.36 1.64 3.54 41.44 3.54 3.53
V ATP 154.90 247.16 1755.86 49.05 620.09 281.06 658.84 180.47
V GLY 0.00 0.01 877.66 22.22 1.00 0.40 0.44 0.73
Ψ 5.00 0.06 5.00 1.00 20.00 2.34 5.48 4.93
Cost 16.61 17.02 18.22 0.00 12.00 11.02 12.06 6.07
Computational details         
Iterations 4 4 4 1 1 4 5 3
LB (NLP) 2.08 46.21 1755.86 0.00 0.26 41.44 658.84 6.07
UB (MILP) 2.09 46.29 1757.87 0.00 0.26 41.48 659.74 6.06
Total time (s) 1.06 1.83 2.54 0.43 0.22 0.97 2.12 1.19
  1. Constraints correspond to those in Table 2. For details on the model and on the meaning of Ψ and Cost the reader is referred to [20] and to Additional File 1.