Table 1

Performance measures of runs submitted to IAS

SVM
 VTT
 SVD-UI



Run 1
 Run 2
 Run 2'
 Run 3
 Run 3'
 Meana
 StDeva
 Mediana
Total predictions

750




Total positive

375




Total negative

375




True positives (TP)
 330
 295
 323
 300

N/A
False positives (FP)
 186
 118
 133
 143



True negatives (TN)
 189
 257
 242
 232



False negatives (FN)
 45
 80
 52
 75



Precision
 0.64
 0.71
 0.71
 0.68
0.66
 0.08
 0.68
Recall
 0.88
 0.79
 0.86
 0.8
0.76
 0.19
 0.85
Accuracy
 0.69
 0.74
 0.75
 0.71
0.67
 0.06
 0.67
F-score
 0.74
 0.75
 0.78
 0.73
0.69
 0.10
 0.72
FP rate
 0.5
 0.32
 0.36
 0.38

N/A
TP rate
 0.88
 0.79
 0.86
 0.8



Error rate
 0.31
 0.26
 0.25
 0.29



AUC
 0.8
 0.76
 0.8
 0.71
 0.75
 0.74
 0.07
 0.75

aCalculated from 51 runs submitted by 19 teams. AUC, area under the curve; IAS, interaction article subtask; SVD, singular value decomposition; SVM, support vector machine; SVD-UI, SVD with uncertainty integration; VTT, variable trigonometric threshold. Bold entries for accuracy, F-Score, and AUC denote best value obtained for all our submitted runs.

Abi-Haidar et al. Genome Biology 2008 9(Suppl 2):S11   doi:10.1186/gb-2008-9-s2-s11

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