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Table 3 Evaluation of SCL prediction methods using human union set (ALL)

From: Protein-protein interaction as a predictor of subcellular location

PPI sets COMMON MAJORITY MERGED Proteome Analyst WolfP
SORT
CELLO pTARGET
Membrane-membrane PPI only (162)
Total # of predicted proteins 155 162 162 35 162 162 79
# of correctly predicted proteins in PA 133 140 141 21 88 99 53
# of correctly predicted proteins in SA 92 91 84 9 61 56 38
PA 0.86 0.86 0.87 0.60 0.54 0.61 0.67
SA 0.59 0.56 0.52 0.26 0.38 0.35 0.48
Soluble-soluble PPI only (807)        
Total # of predicted proteins 686 803 807 411 807 807 499
# of correctly predicted proteins in PA 556 669 689 343 508 605 308
# of correctly predicted proteins in SA 350 372 314 211 320 367 193
PA 0.81 0.83 0.85 0.83 0.63 0.75 0.62
SA 0.51 0.46 0.39 0.51 0.40 0.45 0.39
Membrane-soluble PPI only (206)        
Total # of predicted proteins 193 205 206 64 206 206 95
# of correctly predicted proteins in PA 75 87 92 47 121 116 56
# of correctly predicted proteins in SA 39 37 35 32 92 75 39
PA 0.39 0.42 0.45 0.73 0.59 0.56 0.59
SA 0.20 0.18 0.17 0.50 0.45 0.36 0.41
Total (1175)        
Total # of predicted proteins 1034 1170 1175 510 1175 1175 673
# of correctly predicted proteins in PA 764 896 922 411 717 820 417
# of correctly predicted proteins in SA 481 500 433 252 473 498 270
PA 0.74 0.77 0.78 0.81 0.61 0.70 0.62
SA 0.47 0.43 0.37 0.49 0.40 0.42 0.40
  1. * Numbers in the parentheses indicate total number of proteins for prediction for each category