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Table 1 Accuracy and coverage of the present approach for predicting kinase - substrate interactions

From: Modular composition predicts kinase/substrate interactions

   Training Testing
   PTM 2006 HPRD BioGrid PTM 2009
   TK S/TK TK S/TK TK S/TK TK S/TK
Data EPPI 886 2925 137 199 111 166 33 237
  Kinase 56 176 60 104 41 67 15 61
  Substrate 274 881 32 44 26 44 21 90
  VPPI 15344 155056 1920 4576 1066 2948 315 5490
Present PPPI 1132 7133 43 204 36 69 27 193
  MPPI 617 1876 18 26 17 15 6 16
  p value 0 0 9.0 E-12 1.3E-07 1.0E-09 7.0E-07 0.014 0.0038
  Se 69.6 64.1 13.14 13.07 15.32 0.04 18.18 6.75
  Sp 96.6 95.4 97.76 95.54 96.62 97.66 91.43 96.48
CSSM PPPI 14496 122975 763 1411 433 836 234 4462
  MPPI 826 2815 84 67 64 53 26 160
  p value 0.9416 0 3.79E-08 0.0096 4.33E-05 0.128 0.204 1
  Se 93.23 96.24 61.31 33.67 57.66 31.93 78.79 67.51
  Sp 5.44 20.69 60.26 69.17 59.38 71.64 25.71 18.72
K-GIDDI PPPI 1491 1557 117 75 88 68 33 65
  MPPI 206 42 19 6 17 5 2 11
  p value 0 0.0098 1.32E-04 0.0432 0.0025 0.1814 0.7 0.0002
  Se 23.25 1.44 13.87 3.02 15.32 3.01 6.06 4.64
  Sp 90.28 99 93.9 98.36 91.74 97.69 89.52 98.81
  1. EPPI: Number of Experimental PPI; PPPI: Number of predicted PPI; MPPI: Number of matches between PPPI and EPPPI; VPPI: Number of Virtual PPI used in p value computations. Also shown is the prediction coverage and accuracy of two previously published approaches (CSSM, K-GIDDI).