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Table 2 Using either ΔGas-7, ΔGss-6 or both can better predict the efficacy of shRNAs.

From: Energy profile and secondary structure impact shRNA efficacy

Energy profile ΔGas-5 ΔGas-7 ΔGss-6 ΔGas-7 or ΔGss-6or both
Energy criteria >= -3.2 >= -6.6 >= -7.0  
P value of Chi-test 0.0046 0.0005 0.0045 0.0000001
True positive 155 155 115 192
False positive 35 32 22 39
True negative 33 36 46 29
False negative 66 66 106 29
ROC specificity 0.49 0.53 0.68 0.43
ROC sensitivity 0.70 0.70 0.52 0.87
  1. ROC: Receiver Opearting Characteristic. True positives (TP) are those shRNAs which are experimentally tested to be functional and they meet the energy criteria. False positives (FP) are those shRNAs which meet the energy criteria but are experimentally tested to be nonfunctional. True negatives (TN) are those which are nonfunctional in experiments and fail the energy criteria. False negatives (FN) are those which fail the energy criteria but are functional experimentally. ROC specificity = TN/(TN+FP); ROC sensitivity = TP/(TP+FN).