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Table 3 Comparison of the performance between the profile-based methods and existing allergenicity prediction systems

From: The value of position-specific scoring matrices for assessment of protein allegenicity

Method ACC (%) SP (%) SE (%) PPV (%) NPV (%) MCC (%)
General profile model 95.02 96.92 82.45 81.34 97.34 0.79
Group-specific profile model 94.88 96.52 84.04 79.49 97.56 0.79
FAO/WHO [5] 31.58 23.31 86.36 14.55 91.83 0.08
SVM (global description) [8] 93.01 95.40 77.22 59.02 96.52 0.71
SVM (aa composition) [14] 61.77 57.61 89.33 24.14 97.28 0.32
SVM (dipeptide composition) [14] 61.73 57.55 89.40 24.12 92.29 0.32
MEME/MAST motifs [12] 86.84 99.75 1.26 31.59 87.00 0.04
ARP [15] 61.55 57.45 88.74 18.92 97.12 0.31