Table 2 FBA predicted fluxes vs. experimental fluxes
From: Validation of an FBA model for Pichia pastoris in chemostat cultures
Glycerol | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Code | μ | Glycerol | Oxygen | CO2 | By-products | |||||||
msd1 | ptd2 | msd | ptd | msd | ptd | msd | ptd | msd | ptd | |||
7 | 1.88 | 2.46 | 1.09 | 1.09 | 2.16 | 1.32 | 1.56 | 0.81 | 0.00 | 0.00 | ||
11 | 6.17 | 6.21 | 2.75 | 2.75 | 3.62 | 3.33 | 2.35 | 2.04 | 0.00 | 0.00 | ||
62 | 0.90 | 1.16 | 0.52 | 0.52 | 0.82 | 0.62 | 0.62 | 0.38 | NR3 | 0.00 | ||
63 | 1.11 | 1.39 | 0.62 | 0.62 | 0.87 | 0.75 | 0.65 | 0.46 | NR | 0.00 | ||
64 | 2.38 | 2.74 | 1.21 | 1.21 | 1.65 | 1.47 | 1.22 | 0.90 | NR | 0.00 | ||
65 | 4.89 | 5.42 | 2.40 | 2.40 | 3.12 | 2.91 | 2.29 | 1.78 | NR | 0.00 | ||
66 | 8.37 | 9.13 | 4.04 | 4.04 | 4.77 | 4.89 | 3.40 | 3.00 | NR | 0.00 | ||
70 | 8.07 | 8.31 | 3.68 | 3.68 | 3.99 | 4.45 | 2.96 | 2.73 | NR | 0.00 | ||
71 | 8.79 | 10.16 | 4.50 | 4.50 | 4.71 | 5.44 | 4.70 | 3.34 | NR | 0.00 | ||
72 | 8.66 | 9.17 | 4.06 | 4.06 | 4.19 | 4.91 | 3.53 | 3.01 | NR | 0.00 | ||
NRMSE4 | 12% | 0% | 14% | 23% | ||||||||
Median error5 | 13% | 0% | 13% | 24% | ||||||||
Glucose | ||||||||||||
Code | μ | Glucose | Oxygen | CO 2 | By-products | |||||||
msd | ptd | msd | ptd | msd | ptd | msd | ptd | msd | ptd | |||
1 | 3.72 | 3.83 | 0.96 | 0.96 | 2.00 | 1.90 | 2.09 | 1.95 | ≥0.02a | 0.00 | ||
2 | 3.72 | 3.74 | 0.94 | 0.94 | 1.78 | 1.85 | 1.87 | 1.90 | ≥0.04a | 0.00 | ||
3 | 3.74 | 3.64 | 0.92 | 0.91 | 1.69 | 1.80 | 1.75 | 1.85 | 0.00 | 0.00 | ||
4 | 3.01 | 3.93 | 0.99 | 0.99 | 2.12 | 1.95 | 2.37 | 2.01 | ≥0.03b | 0.00 | ||
5 | 3.71 | 5.29 | 1.33 | 1.33 | 1.57 | 2.62 | 2.03 | 2.69 | ≥0.3c | 0.00 | ||
6 | 3.73 | 6.92 | 1.74 | 1.74 | 0.54 | 3.43 | 1.65 | 3.52 | ≥1.0c | 0.00 | ||
14 | 5.74 | 6.00 | 1.51 | 1.51 | 2.71 | 2.97 | 3.18 | 3.06 | 0.00 | 0.00 | ||
49 | 1.03 | 1.71 | 0.43 | 0.43 | 0.33 | 0.85 | 0.74 | 0.87 | NR | 0.00 | ||
50 | 2.57 | 2.78 | 0.70 | 0.70 | 0.78 | 1.38 | 1.15 | 1.42 | NR | 0.00 | ||
51 | 3.99 | 3.93 | 0.99 | 0.99 | 1.75 | 1.95 | 2.27 | 2.01 | NR | 0.00 | ||
53 | 5.26 | 5.56 | 1.40 | 1.40 | 1.34 | 2.76 | 2.12 | 2.84 | NR | 0.00 | ||
NRMSE | 29% | 0% | 64% | 32% | ||||||||
% Median error | 6% | 0% | 11% | 15% | ||||||||
Methanol | ||||||||||||
Code | μ | Methanol | Oxygen | CO 2 | By-products | |||||||
msd | ptd | msd | ptd | msd | ptd | msd | ptd | msd | ptd | |||
15 | 1.60 | 4.18 | 6.31 | 6.31 | 7.56 | 5.23 | 3.44 | 2.13 | 0.00 | 0.00 | ||
28 | 2.32 | 2.66 | 4.02 | 4.02 | 4.22 | 3.33 | 2.33 | 1.36 | 0.00 | 0.00 | ||
36 | 0.31 | 0.66 | 0.99 | 0.99 | 0.82 | 0.33 | 0.00 | 0.00 | ||||
37 | 1.39 | 3.09 | 4.66 | 4.66 | 3.86 | 1.57 | 0.00 | 0.00 | ||||
38 | 1.62 | 3.73 | 5.64 | 5.64 | 4.67 | 1.90 | 0.00 | 0.00 | ||||
39 | 1.04 | 2.00 | 3.02 | 3.02 | 2.50 | 1.02 | 0.00 | 0.00 | ||||
40 | 1.20 | 2.25 | 3.39 | 3.39 | 2.81 | 1.14 | 0.00 | 0.00 | ||||
41 | 1.93 | 2.88 | 4.34 | 4.34 | 3.60 | 1.47 | 0.00 | 0.00 | ||||
42 | 1.31 | 2.40 | 3.62 | 3.62 | 3.00 | 1.22 | ≥0.01b | 0.00 | ||||
43 | 1.66 | 2.67 | 4.02 | 4.02 | 3.33 | 1.36 | ≥0.01b | 0.00 | ||||
44 | 0.54 | 1.15 | 1.73 | 1.73 | 1.44 | 0.59 | 0.00 | 0.00 | ||||
45 | 0.66 | 1.11 | 1.67 | 1.67 | 1.38 | 0.56 | 0.00 | 0.00 | ||||
53 | 1.97 | 2.69 | 4.06 | 4.06 | 3.36 | 1.37 | NR | 0.00 | ||||
54 | 2.96 | 3.93 | 5.93 | 5.93 | 4.91 | 2.00 | NR | 0.00 | ||||
55 | 3.54 | 4.76 | 7.18 | 7.18 | 5.95 | 2.42 | NR | 0.00 | ||||
56 | 1.22 | 1.80 | 2.72 | 2.72 | 2.93 | 2.26 | 1.57 | 0.92 | NR | 0.00 | ||
57 | 2.12 | 2.94 | 4.44 | 4.44 | 4.70 | 3.68 | 2.48 | 1.50 | NR | 0.00 | ||
58 | 2.31 | 3.17 | 4.79 | 4.79 | 5.05 | 3.97 | 2.72 | 1.62 | NR | 0.00 | ||
59 | 2.34 | 3.21 | 4.85 | 4.85 | 5.08 | 4.02 | 2.68 | 1.64 | NR | 0.00 | ||
60 | 3.53 | 4.71 | 7.12 | 7.12 | 7.22 | 5.89 | 3.76 | 2.40 | NR | 0.00 | ||
61 | 4.47 | 5.90 | 8.90 | 8.90 | 8.67 | 7.37 | 4.46 | 3.01 | NR | 0.00 | ||
NRMSE | 61% | 0% | 51% | 45% | ||||||||
% Median error | 45% | 0% | 21% | 39% | ||||||||
Glycerol methanol mixtures | ||||||||||||
Code | μ | Glycerol | Methanol | Oxygen | CO 2 | By-products | ||||||
msd | ptd | msd | ptd | msd | ptd | msd | ptd | msd | ptd | msd | ptd | |
8 | 2.07 | 2.56 | 0.95 | 0.95 | 0.63 | 0.63 | 2.70 | 1.67 | 1.70 | 0.92 | 0.00 | 0.00 |
9 | 1.72 | 2.65 | 0.74 | 0.74 | 1.48 | 1.48 | 3.90 | 2.12 | 2.10 | 1.05 | 0.00 | 0.00 |
10 | 2.02 | 2.83 | 0.57 | 0.57 | 2.33 | 2.33 | 4.85 | 2.62 | 2.21 | 1.21 | 0.00 | 0.00 |
12 | 6.18 | 7.49 | 2.77 | 2.77 | 1.87 | 1.87 | 7.19 | 4.90 | 4.18 | 2.69 | 0.00 | 0.00 |
13 | 6.24 | 6.84 | 2.23 | 2.23 | 2.73 | 2.73 | 7.20 | 4.96 | 3.60 | 2.58 | 0.00 | 0.00 |
19 | 2.32 | 2.84 | 0.67 | 0.67 | 2.01 | 2.01 | 3.21 | 2.47 | 1.77 | 1.18 | 0.00 | 0.00 |
20 | 2.32 | 2.80 | 0.51 | 0.51 | 2.49 | 2.49 | 3.46 | 2.68 | 1.89 | 1.22 | 0.00 | 0.00 |
21 | 2.32 | 2.78 | 0.43 | 0.43 | 2.73 | 2.73 | 3.58 | 2.78 | 1.97 | 1.24 | 0.00 | 0.00 |
22 | 2.32 | 2.75 | 0.31 | 0.31 | 3.09 | 3.09 | 3.76 | 2.93 | 2.09 | 1.27 | 0.00 | 0.00 |
23 | 2.32 | 2.74 | 0.28 | 0.28 | 3.18 | 3.18 | 3.79 | 2.97 | 2.09 | 1.28 | 0.00 | 0.00 |
24 | 2.32 | 2.72 | 0.18 | 0.18 | 3.49 | 3.49 | 3.96 | 3.11 | 2.17 | 1.31 | 0.00 | 0.00 |
25 | 2.32 | 2.69 | 0.13 | 0.13 | 3.62 | 3.62 | 3.96 | 3.16 | 2.21 | 1.32 | 0.00 | 0.00 |
26 | 2.32 | 2.69 | 0.11 | 0.11 | 3.69 | 3.69 | 4.02 | 3.19 | 2.25 | 1.33 | 0.00 | 0.00 |
27 | 2.32 | 2.68 | 0.09 | 0.09 | 3.74 | 3.74 | 4.06 | 3.21 | 2.25 | 1.33 | 0.00 | 0.00 |
29 | 0.39 | 0.86 | 0.27 | 0.27 | 0.38 | 0.37 | 0.64 | 0.33 | 0.00 | 0.00 | ||
30 | 0.77 | 1.56 | 0.54 | 0.54 | 0.50 | 0.50 | 1.07 | 0.57 | 0.00 | 0.00 | ||
31 | 1.16 | 2.25 | 0.82 | 0.81 | 0.63 | 0.63 | 1.50 | 0.82 | 0.00 | 0.00 | ||
32 | 1.93 | 2.89 | 1.09 | 1.09 | 0.66 | 0.66 | 1.86 | 1.03 | 0.00 | 0.00 | ||
33 | 2.71 | 3.69 | 1.36 | 1.36 | 0.94 | 0.94 | 2.42 | 1.32 | 0.00 | 0.00 | ||
34 | 3.09 | 4.66 | 1.90 | 1.90 | 0.55 | 0.55 | 2.75 | 1.60 | 0.00 | 0.00 | ||
35 | 3.48 | 5.81 | 2.45 | 2.45 | 0.44 | 0.44 | 3.32 | 1.96 | 0.00 | 0.00 | ||
46 | 4.54 | 5.83 | 2.53 | 2.53 | 0.18 | 0.18 | 4.78 | 3.21 | 3.25 | 1.94 | 0.00 | 0.00 |
47 | 5.63 | 7.06 | 2.61 | 2.61 | 1.76 | 1.76 | 5.35 | 4.61 | 3.09 | 2.53 | 0.00 | 0.00 |
48 | 5.44 | 6.72 | 2.22 | 2.22 | 2.58 | 2.58 | 5.73 | 4.82 | 3.33 | 2.52 | 0.00 | 0.00 |
NRMSE | 32% | 0% | 0% | 34% | 39% | |||||||
% Md error | 19% | 0% | 0% | 23% | 39% | |||||||