Table 1 Significant genes identified by MSEA in eight cancers
From: MSEA: detection and quantification of mutation hotspots through mutation set enrichment analysis
| Â | Number of genes | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Â | LAML | BRCA | COADREAD | GBM | LUSC | OvCa | UCEC | Union | CGC |
All non-silent SNVs versus silent SNVs | Â | ||||||||
MSEA-clust | 7 | 13 | 17 | 9 | 4 | 1 | 33 | 63 | 28 (44%) |
MSEA-domain | 7 | 7 | 6 | 6 | 2 | 3 | 7 | 32 | 15 (47%) |
Overlap | 4 | 2 | 2 | 4 | 1 | 1 | 4 | 13 | 8 (62%) |
Union | 10 | 18 | 21 | 11 | 5 | 3 | 36 | 82 | 35 (43%) |
CGC (%) | 10 (100) | 10 (56) | 9 (43) | 8 (73) | 3 (60) | 2 (67) | 12 (33) | Â | Â |
Deleterious non-silent SNVs versus silent SNVs | Â | ||||||||
MSEA-clust | 7 | 10 | 13 | 9 | 4 | 2 | 38 | 61 | 30 (49%) |
MSEA-domain | 7 | 3 | 5 | 9 | 4 | 2 | 17 | 40 | 15 (38%) |
Overlap | 4 | 1 | 1 | 4 | 1 | 1 | 7 | 13 | 9 (69%) |
Union | 10 | 12 | 17 | 14 | 7 | 3 | 48 | 88 | 36 (41%) |
CGC (%) | 10 (100) | 9 (75) | 9 (53) | 7 (50) | 4 (57) | 3 (100) | 14 (29) | Â | Â |
All non-silent SNVs plus indel versus silent SNVs | Â | ||||||||
MSEA-clust | 6 | 106 | 74 | 21 | 8 | 3 | 68 | 251 | 49 (20%) |
MSEA-domain | 8 | 12 | 10 | 7 | 3 | 4 | 8 | 44 | 16 (36%) |
Overlap | 3 | 10 | 5 | 4 | 2 | 2 | 6 | 25 | 11 (44%) |
Union | 11 | 108 | 79 | 24 | 9 | 5 | 70 | 270 | 54 (20%) |
CGC (%) | 10 (91) | 20 (19) | 15 (19) | 8 (33) | 4 (44) | 3 (60) | 16 (23) | Â | Â |
Deleterious non-silent SNVs plus indel versus silent SNVs | Â | ||||||||
MSEA-clust | 7 | 81 | 49 | 6 | 2 | 2 | 33 | 162 | 40 (25%) |
MSEA-domain | 4 | 5 | 5 | 1 | 1 | 1 | 9 | 25 | 9 (36%) |
Overlap | 2 | 5 | 2 | 1 | 0 | 0 | 2 | 11 | 7 (64%) |
Union | 9 | 81 | 52 | 6 | 3 | 3 | 40 | 176 | 42 (24%) |
CGC (%) | 8 (89) | 20 (25) | 8 (13) | 3 (50) | 1 (33) | 2 (67) | 8 (20) | Â | Â |