Table 2. Comparison between GISTIC and WIFA-Seq for GBM.
| Chr | Genes | WIFA |
GISTIC |
|||||
|---|---|---|---|---|---|---|---|---|
| cluster.start | cluster.end | cluster.length | FDC | peak.start | peak.end | peak.length | ||
| 1 | MDM4 | 203277901 | 205825501 | 2547601 | 1|2|3|4|5 | 204334766 | 204529807 | 195042 |
| 4 | FGFR3 | 737301 | 2108301 | 1371001 | 5 | |||
| 4 | PDGFRA | 52663201 | 56488401 | 3825201 | 1|2|3|4|5 | 55140876 | 55218386 | 77511 |
| 6 | QKI | 162272701 | 164169001 | 1896301 | 1|2|3|4|5 | 163767962 | 165698161 | 1930200 |
| 7 | EGFR | 53982101 | 56449401 | 2467301 | 1|2|3|4|5 | |||
| 7 | CDK6 | 91140201 | 92642101 | 1501901 | 4|5 | 92240329 | 92427373 | 187045 |
| 9 | CDKN2A | 19626001 | 29431601 | 9805601 | 1|2|3|4|5 | 21959052 | 21976869 | 17818 |
| 9 | CDKN2B | 19626001 | 29431601 | 9805601 | 1|2|3|4|5 | |||
| 10 | PTEN | 88984001 | 90359501 | 1375501 | 1|2|3|4|5 | 89617158 | 90034038 | 416881 |
| 12 | CCND2 | 3257601 | 4622101 | 1364501 | 4|5 | 4374374 | 4436676 | 62303 |
| 12 | CDK4 | 56919201 | 59971201 | 3052001 | 1|2|3|4|5 | 58125396 | 58162738 | 37343 |
| 12 | MDM2 | 69038101 | 69416901 | 378801 | 1|2|3|4|5 | 69178021 | 69260755 | 82735 |
For both methods, genes were included in clusters/peaks. Thus, start and end positions and the length of clusters/peaks are specified. A column FDC indicates FDCs that identified the given genes.