Table 3.
Gene pairs exceeding quantiles
| Colon: G/S | Colon: O/O | BRCA1: G/S | BRCA1: O/O | |||||
| Quantile | # | o/e | # | o/e | # | o/e | # | o/e |
| 0 | 1,446 | - | 0 | - | 7 | - | 4 | - |
| 10-6 | 2,204 | 1.1·103 | 1 | 5.0·10-1 | 45 | 1.3.101 | 8 | 2.3·100 |
| 10-5 | 5,917 | 3.0·102 | 11 | 5.5·10-1 | 444 | 1.3.101 | 69 | 2.0·100 |
| 10-4 | 11,260 | 5.6·101 | 167 | 8.4·10-1 | 2,473 | 7.0.100 | 584 | 1.7·100 |
| 10-3 | 22,701 | 1.1·101 | 1,924 | 9.6·10-1 | 12488 | 3.6.100 | 5,063 | 1.4·100 |
The number of gene pairs (#) that exceed a given quantile of the permutation distribution in the data for colon and BRCA1, along with the ratio of observed versus expected (o/e) number of gene pairs exceeding this threshold. The abbreviations G/S and O/O refer to the scoring function: G/S, gap/substitution scenario; O/O, on/off scoring situation.