Table 2. Original features and results of selected features.
| Abbreviations | Description | Selection Results | Tool | |||
|---|---|---|---|---|---|---|
| GN | GP | Full | ||||
| Intrinsic feature | Gene size | Length of genes | * | * | ||
| strand | Negative or positive strand | * | ||||
| protein size | Length of amino acids | * | ||||
| Codon bias | T3s | Silent base compositions about T | * | * | * | CodonW [20] |
| C3s | Silent base compositions about C | * | * | |||
| A3s | Silent base compositions about A | * | * | |||
| G3s | Silent base compositions about G | * | * | * | ||
| CAI | Codon Adaptation Index | * | * | * | ||
| CBI | Codon Bias Index | * | ||||
| Fop | Frequency of Optimal codons | |||||
| Nc | The effective number of codons | * | * | |||
| GC3s | G+C content 3rd position of synonymous codons | |||||
| GC | G+C content of the gene | * | * | |||
| L_sym | Length of system amino acids | * | ||||
| Gravy | Hydropathicity of protein | * | * | |||
| Aromo | The frequency of aromatic amino acids | |||||
| Amino acid usage | Amino acid | A, R, D, C, Q, H, I, N, L, K, M, F, P, S, T, W, Y, V | * | |||
| Amino acid | R, D, C, E, H, L, G, N, K, F, P, S, T, M, V | * | ||||
| Amino acid | A, R, C, Q, D, H, I, G, N, L, K, M, F, P, S, T, W, V, Y | * | ||||
| Rare_aa_ratio | The frequencies of rare amino acids | * | ||||
| Close_aa_ratio | The number of codons that one third-base mutationis removed from a stop codon | |||||
| Physio- chemical Properties | M_weight | Molecular weight | Pepstats [21] | |||
| I_Point | Isoelectric Point | * | * | |||
| Tiny | Number of mole of the amino acids (A+C+G+S+T) | * | * | * | ||
| Small | Number of mole of the amino acids (A+B+C+D+G+N+P+S+T+V) | |||||
| Aliphatic | Number of mole of the amino acids (A+I+L+V) | * | * | |||
| Aromatic | Number of mole of the amino acids (F+H+W+Y) | * | * | * | ||
| Non-polar | Number of mole of the amino acids (A+C+F+G+I+L+M+P+V+W+Y) | * | * | |||
| Polar | Number of mole of the amino acids (D+E+H+K+N+Q+R+S+T+Z) | * | * | |||
| Charged | Number of mole of the amino acids (B+D+E+H+K+R+Z) | * | * | |||
| Basic | Number of mole of the amino acids (H+K+R) | * | * | |||
| Acidic | Number of mole of the amino acids (B+D+E+Z) | * | * | |||
| Transmembrane helices | ExpAA | The number of transmembrane amino acids | * | TMHMM3 [22] |
||
| First60 | The number of transmembrane amino acids in first 60 | * | * | * | ||
| PredHel | The final prediction of transmembrane helices | |||||
| Subcellular localization | Cytom | Cytoplasmic Membrane Score | PSORTb v3.0 [23] | |||
| Extra | Extracellular Score | * | * | * | ||
| OuterM | Outer Membrane Score | |||||
| Peri | Periplasmic Score | * | ||||
| Cyto | Cytoplasmic Score | * | * | * | ||
| Cellw | Cell wall Score | * | ||||
| Loc_s | Final Score | * | * | * | ||
| Hurst exponent | Hurst | The Hurst exponent | * | * | R package [24] | |
| Total features (dimension) | 37 | 38 | 40 | |||
* indicates a selected feature. If a feature was selected from two or three of the sets (GN, GP, Full), then it should be considered significantly associated with essentiality.