Table 2 Performance of the pathway consensus approach depending on the prior knowledge used to identify genes related to the candidate under focus

Pathways

MetaBase

2355

52%

74%

19%

Pathways

Reactome

2669

59%

73%

20%

Neighbors

Metabase

4367

96%

68%

22%

Neighbors

MetaBase HQ^a

3623

80%

73%

16%

Neighbors

STRING

3705

81%

71%

19%

Neighbors

STRING HQ^a

3247

71%

74%

14%

Upstream neighbors

Metabase

4362

96%

65%

27%

Upstream neighbors

MetaBase HQ^a

3399

75%

70%

20%

Upstream neighbors

STRING

2158

47%

73%

16%

Upstream neighbors

STRING HQ^a

1825

40%

75%

14%

Downstream neighbors

Metabase

3352

74%

74%

16%

Downstream neighbors

MetaBase HQ^a

2600

57%

74%

15%

Downstream neighbors

STRING

2069

45%

73%

18%

Downstream neighbors

STRING HQ^a

1722

38%

74%

15%

Pathways + Neighbors

Metabase + MetaBase HQ^a

3746

82%

75%

15%

Pathways + Neighbors

Reactome + MetaBase HQ^a

3861

85%

75%

16%

Pathways + Neighbors

MetaBase + STRING HQ^a

3515

77%

76%

14%

Pathways + Neighbors

Reactome + STRING HQ^a

3617

80%

76%

15%