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Table 6 Prediction on simulated missing GO annotations under BMA in MF sub-ontology

From: Interspecies gene function prediction using semantic similarity

q

 

MicroAvgF1

MacroAvgF1

1-RankLoss

Fmax

RAccuracy

1

H →H

91.71 ±0.02

82.31 ±0.22

90.98 ±0.13

91.37 ±0.02

10.56 ±0.21

 

M+H →H

93.70 ±0.02

82.33 ±0.21

96.91 ±0.03

93.87 ±0.02

32.30 ±0.26

 

M →M

92.01 ±0.10

80.50 ±0.41

93.04 ±0.02

92.71 ±0.10

7.85 ±1.15

 

H+M →M

93.09 ±0.02

80.60 ±0.40

96.78 ±0.03

93.27 ±0.02

19.59 ±0.21

2

H →H

80.69 ±0.05

57.31 ±0.41

80.40 ±0.17

80.04 ±0.05

25.12 ±0.21

 

M+H →H

83.56 ±0.03

57.81 ±0.44

89.24 ±0.04

85.04 ±0.03

36.25 ±0.11

 

M →M

79.02 ±0.01

54.82 ±0.41

78.43 ±0.02

79.26 ±0.01

15.78 ±0.05

 

H+M →M

83.03 ±0.03

55.31 ±0.44

87.89 ±0.04

82.83 ±0.03

31.86 ±0.11

3

H →H

70.09 ±0.03

40.45 ±0.42

68.16 ±0.03

70.32 ±0.03

23.70 ±0.08

 

M +H→H

74.76 ±0.04

41.37 ±0.39

80.44 ±0.04

76.58 ±0.04

35.62 ±0.11

 

M →M

68.89 ±0.08

39.27 ±0.25

65.40 ±0.10

68.25 ±0.08

20.59 ±0.21

 

H+M →M

73.68 ±0.04

40.18 ±0.33

76.63 ±0.07

72.99 ±0.04

32.81 ±0.09

  1. q is the number of simulated missing annotations of a gene. H →H directly uses GO annotations of Human to predict annotations of Human genes. M+H →H uses GO annotations of genes from Mouse and Human to predict annotations of Human genes. M →M and H+M →M follow the similar protocol, but make prediction for Mouse genes. The data in boldface is the statistically significant best among these comparing methods for a particular target species, and the significance is checked by paired t-test at 95% confidence intervals