Table 2.
29 BGLMs based on syntax rules
| Category | Model | Description |
|---|---|---|
| DNA | DAC | Dinucleotide-based auto covariance (24) |
| DCC | Dinucleotide-based cross covariance (24) | |
| DACC | Dinucleotide-based auto-cross covariance (24) | |
| TAC | Trinucleotide-based auto covariance (24) | |
| TCC | Trinucleotide-based cross covariance (24) | |
| TACC | Trinucleotide-based auto-cross covariance (24) | |
| MAC | Moran autocorrelation (104,105) | |
| GAC | Geary autocorrelation (104,106) | |
| NMBAC | Normalized Moreau-Broto autocorrelation (104,107) | |
| ZCPseKNC | Z curve pseudo k tuple nucleotide composition (108) | |
| ND | Nucleotide Density (26) | |
| RNA | DAC | Dinucleotide-based auto covariance (24,47) |
| DCC | Dinucleotide-based cross covariance (24,47) | |
| DACC | Dinucleotide-based auto-cross covariance (24,47) | |
| MAC | Moran autocorrelation (104,105) | |
| GAC | Geary autocorrelation (104,106) | |
| NMBAC | Normalized Moreau-Broto autocorrelation (104,107) | |
| ND | Nucleotide Density (26) | |
| Protein | AC | Auto covariance (24,47) |
| CC | Cross covariance (24,47) | |
| ACC | Auto-cross covariance (24,47) | |
| PDT | Physicochemical distance transformation (27) | |
| PDT-Profile | Profile-based physicochemical distance transformation (27) | |
| AC-PSSM | Profile-based Auto covariance (24) | |
| CC-PSSM | Profile-based Cross covariance (24) | |
| ACC-PSSM | Profile-based Auto-cross covariance (24) | |
| PSSM-DT | PSSM distance transformation (27) | |
| PSSM-RT | PSSM relation transformation (109) | |
| Motif-PSSM | Use PSSM as input and extract features by motifs-based CNN (23) |