Table 1.
Tools used for extraction of features along with their cut-off values.
| S. no. | Features | Tool | Cut-off | References |
|---|---|---|---|---|
| 1 | Proteins with less number of trans-membrane helices |
TmPred TMHMM HMMtop |
≤ 1 |
Monterrubio-López et al. (2015)5 Naz et al. (2019)44 Solanki et al. (2018)45 |
| 2 | Non-homology with human | BLAST with human proteome | e-value:10e − 5, identity > 30%, query coverage ≥ 70% | Pearson et al. (2013)35 |
| 3 | Stability (instability index value) | ProtParam | < 40 | Solanki et al. (2018)45 |
| 4 | Non-allergen | Blastp with AllerBase | e-value:10e − 5, identity > 30% | Pearson et al. (2013)35 |
| 5 | Adhesion prediction | FungalRv | ≥ − 1.2 | Monterrubio-López et al. (2015)5 |
| 6 | Essential genes prediction | DEG Database | e-value:10e − 5, identity > 30%, query coverage ≥ 70% | Solanki et al. (2018)45 |
| 7 | Virulence factor | Blastp with VFDB | e-value:10e − 5, identity > 30% | Solanki et al. (2018)45 |
| 8 | Molecular weight | ProtParam | < 110 kDa | Naz et al. (2019)44 |
| 9 | Secretory/non-secretory protein | Signalp (dvalue) | ≥ 0.5 | Liebenberg et al. (2012)46 |
| 10 | Non-bacterial pathogen/BLAST with gut flora | Blastp with GutfloraDB | e-value:10e − 5, identity > 30%, query coverage ≥ 70% | Naz et al. (2019)44 |
| 11 | Sub-cellular localization | Targetp | ≥ 0.8 | Goodswen et al. (2014)47 |
| 12 | MHC Class-1 binding (number of high binders) | NetMHC | ≥ 4.9 | Schroeder and Aebischer (2011)48 |
| 13 | MHC Class-1 binding (number of weak binders) | NetMHC | ≥ 5.05 | Schroeder and Aebischer (2011)48 |
| 14 | Number of cleavage sites | NetChop | ≥ 110 | Dhanda et al. (2017)49 |
| 15 | Number of peptides | NetMHC | < 500 | Schroeder and Aebischer (2011)48 |
| 16 | Number of amino acids | NetChop | < 500 | Dhanda et al. (2017)49 |
| 17 | Cytotoxic T lymphocytes (CTL epitope prediction) (number of MHC ligands) | NetCTL | < 7.5 | Solanki et al. (2018)45 |
| 18 | Antigenicity | Vaxijen | > 0.4 | Monterrubio-López et al. (2015)5 |
| 19 | Subcellular localization | Psortb | > 9.5 | Muruato et al. (2017)50 |
| 20 | MHC Class-1 binding prediction | IEDB (HLA02*01) | > 50 nM | Schroeder and Aebischer (2011)48 |
| 21 | Subcellular localization | Psortb |
Cell wall Extracellular |
Naz et al. (2019)44 Muruato et al. (2017)50 Solanki et al. (2018)45 |
| 22 | Subcellular localization | Psortb | Outer membrane, extracellular and periplasmic | Naz et al. (2019)44 |
| 23 | Subcellular localization | Wolf Psort | Extracellular or plasma membrane | Watanabe et al. (2021)51 |