Table 3.
Number of significant antigens (p < 0.001) resulting from class comparison analysis. Rows show results of different data pre-processing methods, columns indicate the analyzed sample group (“r” means experimental run).
| Data pre-processing | All (r1-6) | run-wise class comparison | cross-run class comparison | ||||||
|---|---|---|---|---|---|---|---|---|---|
| SCLC r1 | SqLC r2 | LCLC r3 | AdCa r4 | SCLC r1+5 | SqLC r2+5 | LCLC r3+6 | AdCa r4+6 | ||
| Unnormalized | 13 | 32 | 17 | 141 | 24 | 74 | 5 | 148 | 5 |
| QNORM | 181 | 340 | 217 | 434 | 98 | 273 | 61 | 362 | 64 |
| ComBat | 299 | 392 | 229 | 500 | 115 | 437 | 109 | 503 | 109 |
| DWD | 39 | 34 | 20 | 141 | 35 | 82 | 3 | 176 | 17 |