Table 3.
The three most significant genes with copy number gain or loss in the lung adenocarcinoma dataset
| Genes | GE mean gain | GE mean loss | GE mean neutral | GE mean diff. | CNA prop. gain | CNA prop. loss | t-test | FDRa |
|---|---|---|---|---|---|---|---|---|
| EIF1AX (G) | 8.798 | 9.029 | 8.060 | 0.731 | 0.275 | 0.005 | 4.23E-21 | 1.21E-18 |
| RAP2C (G) | 7.599 | NA | 7.093 | 0.505 | 0.285 | 0.000 | 3.33E-12 | 4.78E-10 |
| ALAS2 (G) | 5.765 | NA | 6.213 | −0.448 | 0.347 | 0.000 | 1.64E-11 | 1.18E-09 |
| RPS4Y1 (L) | NA | 6.507 | 9.472 | −2.965 | 0.000 | 0.383 | 6.16E-28 | 1.54E-26 |
| TTTY15 (L) | 5.988 | 4.463 | 4.955 | −0.510 | 0.010 | 0.420 | 1.51E-17 | 1.88E-16 |
| PRKY (L) | 6.408 | 4.800 | 5.154 | −0.363 | 0.005 | 0.358 | 7.81E-17 | 6.51E-16 |
GE gene expression, CNA copy number alteration, Diff difference, Prop proportion, FDR false discovery rate, NA not available
aGenes were ordered based on the FDR values