Table 1.
Top motifs output from different motif analysis tools evaluated on the simulated datasets
| Rank | MAGGIE | Linear model | Logistic regression (TBA) | HOMER—pos versus bg | HOMER—neg versus bg |
|---|---|---|---|---|---|
| 1 | SPI1* (13) | SPI1* (8.6) | SPI1 (1.0) | CEBPG* (198) | CEBPG* (195) |
| 2 | SPIB* (10) | SPIB* (6.5) | ZSCAN10 (0.8) | CEBPD* (194) | CEBPB* (183) |
| 3 | SPIC* (4.7) | ETV6 (3.6) | EWSR1-FLI1 (0.8) | CEBPB * (192) | CEBPD* (181) |
| 4 | ETV6* (4.5) | SPIC (3.6) | STAT5A (0.6) | CEBPE* (191) | CEBPE* (178) |
| 5 | ELF1* (4.2) | EHF (3.2) | SIX6 (0.4) | SPI1* (177) | SPI1* (127) |
Note: −log10 P-values are shown in parentheses. (*) indicates motifs that passed FDR < 0.05 after the Benjamini–Hochberg controlling procedure. As the true positive, SPI1 motif is highlighted in bold.