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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