Table 4:
The optimum 74 features contributing to predicting the ISGs
| Evolutionary features (2) | ||
| Number of human paralogues, average dS within human paraloguesN | ||
| Codon usage features (10) | ||
| Codon usage: CTA (L)P | Codon usage: ATT (I) | Codon usage: TAT (Y) |
| Codon usage: GCG (A)N | Codon usage: CAC (H)N | Codon usage: TGC (C) |
| Codon usage: CGT (R) | Codon usage: CGA (R) | Codon usage: CGG (R)N |
| Codon usage: AGA (R)P | ||
| Genetic composition features (40) | ||
| DNA AC content | Dinucleotide CpT composition | DNA 4-mer CGCG compositionN |
| DNA 4-mer AATC compositionP | DNA 4-mer TCGT composition | DNA 4-mer GATG compositionP |
| DNA 4-mer AACA composition | DNA 4-mer TGAG compositionP | DNA 4-mer GACC composition |
| DNA 4-mer ATAT composition | DNA 4-mer TGTA composition | DNA 4-mer GACG composition |
| DNA 4-mer ATGT compositionP | DNA 4-mer CACG composition | DNA 4-mer GAGT compositionP |
| DNA 4-mer ACAC composition | DNA 4-mer CTCC composition | DNA 4-mer GTAC composition |
| DNA 4-mer ACTA composition | DNA 4-mer CCAC composition | DNA 4-mer GTGT composition |
| DNA 4-mer ACTC composition | DNA 4-mer CCTA composition | DNA 4-mer GTGC composition |
| DNA 4-mer ACCG composition | DNA 4-mer CCTC compositionP | DNA 4-mer GTGG composition |
| DNA 4-mer TATG composition | DNA 4-mer CCGT composition | DNA 4-mer GCAA compositionP |
| DNA 4-mer TTCT composition | DNA 4-mer CGAG composition | DNA 4-mer GCTC composition |
| DNA 4-mer TTCG composition | DNA 4-mer CGTG composition | DNA 4-mer GCCT composition |
| DNA 4-mer TTGA composition | DNA 4-mer CGCA composition | DNA 4-mer GGGG composition |
| DNA 4-mer TCAT composition | ||
| Proteomic composition features (9) | ||
| Arginine composition, cysteine compositionP, methionine composition | ||
| Basic amino acid composition (R/H/K)P | Sulphur amino acid composition (C&M)P | |
| Hydroxyl amino acid composition (S&T)N | Small amino acid composition (N/D/C/P/T)N | |
| Large amino acid composition (R/I/L/K/M)P | ||
| Uncharged amino acid composition (A/N/C/Q/G/I/L/M/F/P/S/T/W/Y/V)N | ||
| Features about human interactome network (3) | ||
| Average shortest pathsP, betweenness, neighbourhood connectivityN | ||
| Sequence pattern features (8) | ||
| SLNP: ATA[AG][TG] | SLNP: TAT[AT]T | SLNP: T[AT]AAA |
| SLNP: [ATG]TGTA | SLAAP: SxNxE | SLAAP: ENE |
| SLAAP: SVI | Co-occurrence of SLAAPs (count) | |
P
Features are positively associated with the level of upregulation in IFN-α experiments (P < 0.05).
N
Features are negatively associated with the level of upregulation in IFN-α experiments (P < 0.05).