Table 4 Comparison of the prediction results for different PSSM-based feature description methods on Dataset1 (\(\%\)).
From: Hybrid framework for membrane protein type prediction based on the PSSM
Specific type | Index | Dpc-PSSM | Eedp-PSSM | DF-PSSM | Kse-PSSM | Ab-PSSM | Rpm-PSSM | TG-PSSM | ICNN |
|---|---|---|---|---|---|---|---|---|---|
Type I | Se | 91.67 | 91.67 | 86.94 | 92.79 | 91.67 | 87.39 | 93.69 | 95.95 |
Sp | 98.51 | 98.15 | 92.41 | 98.71 | 98.59 | 98.77 | 98.97 | 99.46 | |
ACC | 97.81 | 97.48 | 91.85 | 98.11 | 97.88 | 97.60 | 98.43 | 99.10 | |
Mcc | 88.35 | 86.86 | 66.12 | 89.92 | 88.68 | 86.85 | 91.58 | 95.12 | |
Type II | Se | 84.62 | 82.05 | 7.69 | 89.74 | 93.59 | 67.95 | 91.03 | 94.87 |
Sp | 98.33 | 98.47 | 99.58 | 98.31 | 98.35 | 99.41 | 99.11 | 99.22 | |
ACC | 98.08 | 98.18 | 97.92 | 98.15 | 98.27 | 98.85 | 98.96 | 99.15 | |
Mcc | 63.03 | 62.99 | 13.02 | 65.76 | 68.43 | 67.36 | 76.53 | 80.61 | |
Type III | Se | 33.33 | 33.33 | 0.00 | 33.33 | 0.50 | 16.67 | 33.33 | 50.00 |
Sp | 99.86 | 99.82 | 100 | 99.88 | 99.84 | 100 | 99.88 | 99.72 | |
ACC | 99.77 | 99.72 | 99.86 | 99.79 | 99.77 | 99.88 | 99.79 | 99.65 | |
Mcc | 28.75 | 25.69 | 0.00 | 30.76 | 38.62 | 40.80 | 30.76 | 31.48 | |
Type IV | Se | 83.33 | 83.33 | 0.00 | 75.00 | 0.75 | 41.67 | 83.33 | 91.67 |
Sp | 99.84 | 99.91 | 100 | 99.88 | 99.95 | 100 | 99.95 | 99.86 | |
ACC | 99.79 | 99.86 | 99.72 | 99.82 | 99.88 | 99.84 | 99.91 | 99.84 | |
Mcc | 69.92 | 77.08 | 0.00 | 69.35 | 78.28 | 64.50 | 83.29 | 76.94 | |
Mutipass | Se | 94.73 | 93.63 | 90.26 | 94.70 | 94.64 | 95.16 | 95.16 | 96.85 |
Sp | 97.66 | 97.57 | 86.80 | 96.44 | 97.38 | 88.11 | 98.50 | 98.03 | |
ACC | 95.45 | 94.60 | 89.41 | 95.13 | 95.32 | 93.42 | 95.98 | 97.14 | |
Mcc | 88.64 | 86.75 | 73.39 | 87.71 | 88.28 | 82.48 | 89.97 | 92.60 | |
Lipid-chain -anchored | Se | 63.16 | 39.47 | 15.79 | 50.00 | 52.63 | 31.58 | 50.00 | 65.79 |
Sp | 99.49 | 99.51 | 99.74 | 99.56 | 99.53 | 99.88 | 99.77 | 99.67 | |
ACC | 99.17 | 98.98 | 99.01 | 99.12 | 99.12 | 99.28 | 99.33 | 99.38 | |
Mcc | 56.99 | 40.04 | 23.17 | 49.56 | 50.86 | 46.92 | 56.91 | 64.63 | |
GPI-anchored | Se | 76.09 | 82.61 | 10.87 | 69.57 | 89.13 | 60.87 | 78.26 | 95.65 |
Sp | 99.65 | 99.30 | 99.84 | 99.56 | 99.49 | 99.77 | 99.72 | 99.74 | |
ACC | 99.40 | 99.12 | 98.89 | 99.24 | 99.38 | 99.35 | 99.49 | 99.70 | |
Mcc | 72.68 | 67.54 | 20.88 | 65.68 | 75.87 | 66.65 | 76.36 | 87.33 | |
Peripheral | Se | 84.68 | 86.71 | 53.83 | 82.43 | 84.46 | 83.11 | 90.32 | 90.09 |
Sp | 97.02 | 96.68 | 93.01 | 96.84 | 97.15 | 96.01 | 96.19 | 98.20 | |
ACC | 95.75 | 95.66 | 88.99 | 95.36 | 95.85 | 94.69 | 95.59 | 97.37 | |
Mcc | 78.10 | 78.22 | 44.04 | 75.98 | 78.42 | 73.59 | 78.87 | 86.10 | |
ALL | OA | 92.61 | 91.80 | 82.83 | 92.36 | 92.73 | 91.46 | 93.74 | 95.66 |
Dimension | 400-D | 400-D | 20-D | 400-D | 400-D | 400-D | 8000-D | – |
