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Table 5 Prediction of the disease type with a SVM-based method

From: Predicting cancer-associated germline variations in proteins

Encoding Q MCC Sp(C) Sn(C) Sp(O) Sn(O)
mut_E_W1 0.59 0.12 0.21 0.55 0.88 0.60
mut_E_W5 0.64 0.17 0.24 0.55 0.88 0.66
OnlyGO 0.89 0.60 0.7 0.63 0.93 0.95
mut_GO_E 0.89 0.60 0.68 0.65 0.93 0.94
mut_GO_E_W1 0.89 0.58 0.68 0.64 0.93 0.94
mut_GO_E_W5 0.89 0.58 0.68 0.64 0.93 0.94
mut_GO 0.90 0.61 0.69 0.66 0.93 0.94
  1. mut= is a 20 elements vector that encodes for the variation type; Wx= a input sequence window of dimension x centered into the variation; E= the evolutionary information on the variation obtained by extracting the 4 columns that represent the wild-type and the mutant residues as reported by PSI-BLAST PSSM/PROFILE output (-Q option); GO= the 3 GO scores. For a definition of classes and scoring indexes see section: Measuring the performance.
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