Table 3 True DEG analysis results of Holstein milk data. Holstein milk data was analyzed by BALLI, DESeq2, edgeR, LLI, and voom and their p values (FDRs) are provided
BALLI | DESeq2 | edgeR | LLI | voom | |
|---|---|---|---|---|---|
TOX4 | 1.058 × 10−5 (1.267 × 10− 1) | 2.949 × 10−4 (6.298 × 10− 1) | 2.797 × 10−2 (1) | 7.476 × 10−7 (8.947 × 10− 3) | 4.980 × 10− 3 (9.999 × 10− 1) |
HNRNPL | 3.913 × 10− 4 (9.222 × 10− 1) | 1.551 × 10− 3 (9.997 × 10− 1) | 1.684 × 10− 1 (1) | 6.796 × 10− 5 (1.787 × 10− 1) | 4.677 × 10− 2 (9.999 × 10− 1) |
SPTSSB | 4.457 × 10− 4 (9.222 × 10− 1) | 2.660 × 10− 3 (9.997 × 10− 1) | 2.160 × 10− 4 (1) | 8.686 × 10− 5 (1.787 × 10− 1) | 1.037 × 10− 3 (9.999 × 10− 1) |
NOS3 | 4.676 × 10−4 (9.222 × 10− 1) | 2.396 × 10− 4 (6.928 × 10− 1) | 2.549 × 10− 4 (1) | 8.957 × 10− 5 (1.787 × 10− 1) | 8.693 × 10− 4 (9.999 × 10− 1) |
SLC4A1 | 2.145 × 10−2 (9.999 × 10− 1) | 8.753 × 10− 2 (9.997 × 10− 1) | 1.025 × 10− 1 (1) | 9.856 × 10− 3 (7.179 × 10− 1) | 7.579 × 10− 2 (9.999 × 10− 1) |
NLN | 9.513 × 10− 2 (9.999 × 10− 1) | 3.028 × 10− 1 (9.997 × 10− 1) | 3.789 × 10− 1 (1) | 6.084 × 10− 2 (9.774 × 10− 1) | 1.214 × 10− 1 (9.999 × 10− 1) |
KALRN | 9.792 × 10− 2 (9.999 × 10− 1) | 8.943 × 10− 2 (9.997 × 10− 1) | 8.815 × 10− 2 (1) | 6.307 × 10− 2 (9.790 × 10− 1) | 1.054 × 10− 1 (9.999 × 10− 1) |
PMCH | 1.635 × 10− 1 (9.999 × 10− 1) | 2.225 × 10− 1 (9.997 × 10− 1) | 2.353 × 10− 1 (1) | 1.176 × 10− 1 (9.999 × 10− 1) | 1.758 × 10− 1 (9.999 × 10− 1) |
C25H16orf88 | 1.765 × 10− 1 (9.999 × 10− 1) | 1.494 × 10− 1 (9.997 × 10− 1) | 2.627 × 10− 1 (1) | 1.289 × 10− 1 (9.999 × 10− 1) | 1.516 × 10− 1 (9.999 × 10− 1) |