Table 2 Mutation effect prediction algorithms in dbNSFP database. Assignment to a category was made based on their main working principle
From: CVE: an R package for interactive variant prioritisation in precision oncology
| Â | Score name | Category |
|---|---|---|
1 | PhastCons100way_vertebrate | conservation |
2 | PhastCons46way_placental | conservation |
3 | PhastCons46way_primate | conservation |
4 | PhyloP100way_vertebrate | conservation |
5 | PhyloP46way_placental | conservation |
6 | PhyloP46way_primate | conservation |
7 | SiPhy_29way_logOdds | conservation |
8 | GERP++ | conservation |
9 | FATHMM | function prediction |
10 | LRT | function prediction |
11 | MutationAssessor | function prediction |
12 | MutationTaster | function prediction |
13 | Polyphen2_HDIV | function prediction |
14 | Polyphen2_HVAR | function prediction |
15 | SIFT | function prediction |
16 | LR | ensemble score |
17 | RadialSVM | ensemble score |
18 | CADD | ensemble score |