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Table 4 Performances of Scuba, MKL1class and ProDiGe in the expanded unbiased setting involving seven multifactorial diseases

From: Scuba: scalable kernel-based gene prioritization

Method

Rank

Rank

TPR in top

TPR in top

TPR in top

TPR in top

AUC

Rank difference

 

median

average

1% (%)

5% (%)

10% (%)

30% (%)

 

p-value

Genome-wide prioritizations

 

Scuba

8.13

17.45 ± 22.33

10.4

41.7

58.3

79.2

0.83

-

MKL1class [12]

14.28

25.79 ± 26.96

2.1

27.1

45.8

66.7

0.74

1.2 ·10−5 *

ProDiGe [13]

7.89

18.40 ± 23.77

10.4

43.8

54.2

79.2

0.82

9.5 ·10−2

  1. Values refer to predictions on 48 gene-disease associations. Rank difference p-values were obtained using Wilcoxon signed rank tests comparing separately Scuba/MKL1class and Scuba/ProDiGe ranks differences. Asterisks indicate significance of the tests at a threshold of 0.05
  2. Italics indicates the top ranking score of each column