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Table 3 Effect of RIN and probe sensitivity to RNA degradation on assay sensitivity. The percent sensitivity for a false positive rate of 10% [and 95% Confidence Interval] is reported for liver selective probe sets that significantly decrease in response to RNA degradation (LS_DEC), all liver selective probe sets (LS_ALL), and liver selective probe sets that are invariant to RNA degradation (LS_INV).

From: Characterization of the effect of sample quality on high density oligonucleotide microarray data using progressively degraded rat liver RNA

Fold change

RIN group

LS_DEC

LS_ALL

LS_INV

1.5

9.5

97.2 [85.8, 99.7]

92.9 [88.2, 96.1]

100 [94.0, 100]

 

8

92.4 [78.7, 98.1]

92.0 [87.5, 95.2]

100 [93.6, 100]

 

7

72.7 [55.2, 85.9]

88.7 [82.0, 93.4]

100 [90.3, 100]

 

6

68.4 [51, 82.5]

88.3 [82.9, 92.4]

100 [84.5, 100]

2

9.5

99.2 [90.7, 100]

96.3 [93.3, 98.1]

100a

 

8

94.3 [82.6, 98.7]

94.7 [91.6, 96.8]

99.9 [80.3, 100]

 

7

84.2 [68.7, 93.6]

93.8 [89.4, 96.7]

100 [39.5, 100]

 

6

83.6 [68.3, 93.1]

93.3 [89.3, 96.0]

100 [79.7, 100]

4

9.5

99.0 [89.3, 100]

96.9 [94.5, 98.4]

100a

 

8

96.4 [85.8, 99.4]

95.7 [93.1, 97.5]

100a

 

7

87.8 [74.1, 95.4]

95.3b

100a

 

6

87.6 [74.2, 95.2]

94.6 [91.6, 96.7]

100a

  1. aNo CI (for perfect discrimination, data cannot be fitted to a ROC curve)
  2. bValue interpolated from empirical data using Weibull cumulative discrimination function