Table 1. Summary of detected regions on SNP6 data set.
| Methods | RUBIC | GISTIC2 | RAIG |
|---|---|---|---|
| Breast cancer (BRCA; n=1,080) | |||
| No. regions (gains/losses) | 100/58 | 28/31 | 11/41 |
| No. Census regions (gains/losses) | 48/16 | 15/17 | 0/5 |
| No. Census genes (gains/losses) | 63/26 | 16/33 | 0/5 |
| Avg. driver density (gains/losses) | 0.21/0.41 | 0.34/0.10 | 0.80/0.57 |
| Glioblastoma (GBM; n=577) | |||
| No. regions (gains/losses) | 40/152 | 22/36 | 25/58 |
| No. Census regions (gains/losses) | 23/26 | 14/13 | 7/6 |
| No. Census genes (gains/losses) | 33/34 | 15/15 | 7/6 |
| Avg. driver density (gains/losses) | 0.29/0.71 | 0.39/0.19 | 0.59/0.56 |
| Colon adenocarcinoma (COAD; n=450) | |||
| No. regions (gains/losses) | 23/72 | 17/31 | 27/50 |
| No. Census regions (gains/losses) | 11/12 | 8/9 | 6/5 |
| No. Census genes (gains/losses) | 16/14 | 10/10 | 6/7 |
| Avg. driver density (gains/losses) | 0.14/0.58 | 0.21/0.20 | 0.36/0.46 |
Recurrent copy number regions predicted by RUBIC, GISTIC2 and RAIG on BRCA, GBM and COAD. For each subtable containing the results of a specific cancer type, the rows represent the following: the first row (labelled ‘no. regions') represents the total number of focal recurrent regions detected by each algorithm. The second row shows the number of regions that overlap with Census genes. The third row represents the total number of Census genes detected. The last row shows the average driver density in the called regions. Each entry has two values (separated with a slash) representing recurrent gains and losses, respectively.