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Table 4 Validation and real-time PCR measures computed with three different DNA extraction methods on three matrices

From: Testing the interaction between analytical modules: an example with Roundup Ready®soybean line GTS 40-3-2

Validation/efficiency measures (and fuzzy-based modules and indicator) DNA extraction method
   CTAB Wizard Dellaporta
CRM 1%
Basic measures Average bias (B, %) 22.3 10.5 14.0
  Relative standard deviation repeatability (RSD r , %) 13.8 34.6 9.6
  Reference gene efficiency (E 1 , %) 99.4 99.8 99.8
  Target gene efficiency (E 2 , %) 99.7 99.5 99.2
Fuzzy-based aggregated measures Accuracy 0.4271 0.5000 0.0000
  Efficiency 0.0000 0.0000 0.0000
  Indicator 0.2736 0.3750 0.0000
Feed
Basic measures Average bias (B, %) 0.8 23.5 1.6
  Relative standard deviation repeatability (RSD r , %) 20.5 -* 11.8
  Reference gene efficiency (E 1 , %) 99.4 99.8 99.8
  Target gene efficiency (E 2 , %) 99.0 98.5 99.2
Fuzzy-based aggregated measures Accuracy 0.0011 -* 0.0000
  Efficiency 0.0000 0.0000 0.0000
  Indicator ~0.0000 -* 0.0000
Biscuit
Basic measures Average bias (B, %) 12.3 87.5 29.9
  Relative standard deviation repeatability (RSD r , %) 14.8 37.7 14.0
  Reference gene efficiency (E 1 , %) 99.7 99.9 99.8
  Target gene efficiency (E 2 , %) 99.7 99.8 99.2
Fuzzy-based aggregated measures Accuracy 0.0000 1.0000 0.5000
  Efficiency 0.0000 0.0000 0.0000
  Indicator 0.0000 0.7500 0.3750
  1. - Not including data violating DNA quality acceptance from inhibition tests.
  2. - Estimated robust means are: feed, 0.87%; biscuit, 1.84%. Fuzzy logic is used to computed aggregated measures of B and RSD r (Accuracy), E 1 and E 2 (Efficiency), and an overall indicator
  3. * Impossible to calculate repeatability and derived measures for lack of replicates.