Table 2 Summary of PolyPhen and PANTHER annotations of missense SNPs
From: Mouse SNP Miner: an annotated database of mouse functional single nucleotide polymorphisms
Strains | Â | Functional Predictions | Total SNP(%) | Genes Affected(%) |
|---|---|---|---|---|
C57BL/6J vs. DBA/2J | PolyPhen | Deleterious | 1,755 (19.4%) | 954 (26.1%) |
| Â | Â | Benign | 6,757 (74.5%) | 2,343 (64%) |
| Â | Â | Unknown | 567 (6.3%) | 367 (10.1%) |
| Â | Â | Total | 9,079 | 3,664 |
| Â | PANTHER | Deleterious | 1,285 (14.2%) | 632(17.1%) |
| Â | Â | non-deleterious | 4,678 (51.6%) | 1,736 (47%) |
| Â | Â | Unknown | 3,116 (34.4%) | 1,329 (36%) |
| Â | Â | Total | 9,079 | 3,697 |
C57BL/6J vs. 129S1/SvImJ | PolyPhen | Deleterious | 796 (19.5%) | 480 (24.9%) |
| Â | Â | Benign | 2,995 (73.4%) | 1,270(65.7%) |
| Â | Â | Unknown | 293 (7.2%) | 185 (9.6%) |
| Â | Â | Total | 4,084 | 1,935 |
| Â | PANTHER | Deleterious | 568 (14%) | 327(16.9%) |
| Â | Â | non-deleterious | 2,049 (50.2%) | 913 (47.1%) |
| Â | Â | Unknown | 1,467 (36%) | 701 (36.2%) |
| Â | Â | Total | 4,084 | 1,941 |
C57BL/6J vs. A/J | PolyPhen | Deleterious | 2,350 (18.9%) | 1,197(26.1%) |
| Â | Â | Benign | 9,220 (74.2%) | 2,889 (63%) |
| Â | Â | Unknown | 865 (7%) | 504 (11%) |
| Â | Â | Total | 12,435 | 4,590 |
| Â | PANTHER | Deleterious | 1,785 (14.4%) | 798(17.1%) |
| Â | Â | non-deleterious | 6,443 (51.9%) | 2,154(46.1%) |
| Â | Â | Unknown | 4,207 (33.9%) | 1,724 (36.9%) |
| Â | Â | Total | 12,435 | 4,676 |