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Table 1 Comparison of i MM904 and i LL672 gene deletion predictions and experimental data under minimal media conditions.

From: Connecting extracellular metabolomic measurements to intracellular flux states in yeast

Media Model Method True viable False viable False lethal True lethal True viable % False viable % MCC
Glucose iMM904 full FBA 647 10 32 33 95.29 23.26 0.60
  iMM904 full linMOMA 644 10 35 33 94.85 23.26 0.58
  iMM904 full MOMA 644 10 35 33 94.85 23.26 0.58
  iMM904 reduced FBA 440 9 28 33 94.02 21.43 0.61
  iMM904 reduced linMOMA 437 9 31 33 93.38 21.43 0.60
  iMM904 reduced MOMA 437 9 31 33 93.38 21.43 0.60
  iLL672 full MOMA 433 9 35 33 92.52 21.43 0.57
Galactose iMM904 full FBA 595 32 36 59 94.29 35.16 0.58
  iMM904 full linMOMA 595 32 36 59 94.29 35.16 0.58
  iMM904 full MOMA 595 32 36 59 94.29 35.16 0.58
  iMM904 reduced FBA 409 12 33 56 92.53 17.65 0.67
  iMM904 reduced linMOMA 409 12 33 56 92.53 17.65 0.67
  iMM904 reduced MOMA 409 12 33 56 92.53 17.65 0.67
  iLL672 full MOMA 411 19 31 49 92.99 27.94 0.61
Glycerol iMM904 full FBA 596 43 36 47 94.30 47.78 0.48
  iMM904 full linMOMA 595 44 37 46 94.15 48.89 0.47
  iMM904 full MOMA 598 44 34 46 94.62 48.89 0.48
  iMM904 reduced FBA 410 20 34 46 92.34 30.30 0.57
  iMM904 reduced linMOMA 409 21 35 45 92.12 31.82 0.56
  iMM904 reduced MOMA 412 21 32 45 92.79 31.82 0.57
  iLL672 full MOMA 406 20 38 46 91.44 30.30 0.55
Ethanol iMM904 full FBA 593 45 29 55 95.34 45.00 0.54
  iMM904 full linMOMA 592 45 30 55 95.18 45.00 0.54
  iMM904 full MOMA 592 44 30 56 95.18 44.00 0.55
  iMM904 reduced FBA 408 21 27 54 93.79 28.00 0.64
  iMM904 reduced linMOMA 407 21 28 54 93.56 28.00 0.63
  iMM904 reduced MOMA 407 20 28 55 93.56 26.67 0.64
  iLL672 full MOMA 401 13 34 62 92.18 17.33 0.68
  1. MCC, Matthews correlation coefficient (see Methods). Note that the i LL672 predictions were obtained directly from [3] and thus the viability threshold was not optimized using the maximum MCC approach.