Table 1 Performance results from implemented human DLPR models
From: Supervised promoter recognition: a benchmark framework
CNNProm dataset | ICNNP dataset | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1426 promoters | 19,811 promoters | 21,237 promoters | 7156 promoters | ||||||||||||||
8256 non-promoters | 27,731 non-promoters | 35,987 non-promoters | 5235 non-promoters | ||||||||||||||
TATA | Non-TATA | Complete dataset | Complete dataset | ||||||||||||||
MCC | PPV | Sn | Sp | MCC | PPV | Sn | Sp | MCC | PPV | Sn | Sp | MCC | PPV | Sn | Sp | ||
OS\(^*\) | 1 | 90 | – | 95 | 98 | 89 | – | 90 | 98 | – | – | – | – | – | – | 82 | 79 |
2 | – | – | – | – | – | – | – | – | – | – | – | – | – | – | 90 | 87 | |
3 | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | |
CT\(^*\) | 1 | 92 | 95 | 91 | 99 | 72 | 85 | 83 | 89 | 73 | 85 | 82 | 91 | – | – | – | – |
CI | 90–93 | 94–96 | 89–93 | 99–99 | 71–73 | 81–88 | 80–86 | 86–92 | 72–74 | 82–87 | 79–84 | 89–93 | – | – | – | – | |
2 | – | – | – | – | – | – | – | – | – | – | – | – | 64 | 83 | 88 | 74 | |
CI | – | – | – | – | – | – | – | – | – | – | – | – | 61–67 | 80–87 | 83–93 | 66–82 | |
3 | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | |
CI | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | – | |
CT\(^-\) | 1 | 86 | 82 | 94 | 97 | 73 | 91 | 76 | 95 | 76 | 88 | 82 | 94 | 69 | 76 | 87 | 84 |
2 | – | – | – | – | – | – | – | – | 69 | 76 | 87 | 84 | 70 | 88 | 87 | 83 | |
3 | 16 | 18 | 91 | 28 | − 5 | 41 | 93 | 05 | − 4 | 37 | 95 | 03 | 07 | 59 | 96 | 07 | |
CT\(^+\) | 1 | 94 | 93 | 97 | 99 | 76 | 89 | 83 | 93 | 80 | 90 | 84 | 95 | 74 | 93 | 84 | 91 |
2 | – | – | – | – | – | – | – | – | 72 | 79 | 86 | 87 | 82 | 95 | 89 | 93 | |
3 | 19 | 18 | 99 | 22 | − 3 | 41 | 96 | 03 | 0 | 37 | 97 | 03 | 07 | 59 | 96 | 07 | |
DProm dataset | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3065 promoters | 26,532 promoters | 29,597 promoters | |||||||||||
3065 non-promoters | 26,532 non-promoters | 29,597 non-promoters | |||||||||||
TATA | Non-TATA | Complete dataset | |||||||||||
MCC | PPV | Sn | Sp | MCC | PPV | Sn | Sp | MCC | PPV | Sn | Sp | ||
OS* | 1 | 62 | 75 | 91 | – | 26 | 58 | 83 | – | – | – | – | – |
2 | – | – | – | – | – | – | – | – | – | – | – | – | |
3 | 88 | 93 | 95 | – | 92 | 97 | 95 | – | – | – | – | – | |
CT* | 1 | – | – | – | – | – | – | – | – | – | – | – | – |
CI | – | – | – | – | – | – | – | – | – | – | – | – | |
2 | – | – | – | – | – | – | – | – | – | – | – | – | |
CI | – | – | – | – | – | – | – | – | – | – | – | – | |
3 | 90 | 95 | 95 | 95 | 91 | 96 | 95 | 96 | 91 | 97 | 94 | 97 | |
CI | 88–92 | 92–98 | 93–97 | 91–98 | 90–92 | 94–97 | 94–97 | 94–97 | 91–92 | 95–98 | 92–96 | 95–98 | |
CT− | 1 | 16 | 18 | 91 | 28 | − 5 | 41 | 93 | 05 | − 4 | 37 | 95 | 03 |
2 | – | – | – | – | – | – | – | – | 27 | 58 | 87 | 37 | |
3 | 86 | 95 | 91 | 95 | 91 | 98 | 93 | 98 | 91 | 96 | 95 | 96 | |
CT+ | 1 | 65 | 74 | 95 | 67 | 14 | 54 | 82 | 29 | 12 | 53 | 84 | 26 |
2 | – | – | – | – | – | – | – | – | 27 | 58 | 86 | 38 | |
3 | 99 | 1 | 99 | 1 | 94 | 98 | 96 | 98 | 94 | 98 | 96 | 98 | |