Table 2.
Top 10 transcription factor targets enriched among 577 genes with increased 5hmC density in PDAC cfDNA versus non-cancer cfDNA. p-values were derived from Kolmogorov–Smirnov (K–S) test.
| Gene set name | Description | # Genes in overlap (k) | k/K | p-value | FDR q-value |
|---|---|---|---|---|---|
| AACTTT_UNKNOWN | Genes having at least one occurrence of the highly conserved motif M17 AACTTT in the region spanning up to 4 kb around their transcription start sites. The motif does not match any known transcription factor binding site (v7.4 TRANSFAC). | 117 | 0.0604 | 2.93E−40 | 1.79E−37 |
| TGGAAA_NFAT_Q4_01 | Genes having at least one occurrence of the highly conserved motif M55 TGGAAA sites. The motif matches transcription factor binding site V$NFAT_Q4_01 (v7.4 TRANSFAC). | 101 | 0.0524 | 1.71E−29 | 5.22E−27 |
| TAATTA_CHX10_01 | Genes having at least one occurrence of the highly conserved motif M23 TAATTA sites. The motif matches transcription factor binding site V$CHX10_01 (v7.4 TRANSFAC). | 60 | 0.0729 | 1.18E−24 | 2.39E−22 |
| CTTTGA_LEF1_Q2 | Genes having at least one occurrence of the highly conserved motif M73 CTTTGA sites. The motif matches transcription factor binding site V$LEF1_Q2 (v7.4 TRANSFAC). | 68 | 0.0545 | 9.10E−21 | 1.39E−18 |
| TTANTCA_UNKNOWN | Genes having at least one occurrence of the highly conserved motif M64 TTANTCA in the region spanning up to 4 kb around their transcription start sites. The motif does not match any known transcription factor binding site (v7.4 TRANSFAC). | 59 | 0.0611 | 1.77E−20 | 2.16E−18 |
| TATAAA_TATA_01 | Genes having at least one occurrence of the highly conserved motif M51 TATAAA sites. The motif matches transcription factor binding site V$TATA_01 (v7.4 TRANSFAC). | 65 | 0.0495 | 8.82E−18 | 8.97E−16 |
| TGATTTRY_GFI1_01 | Genes having at least one occurrence of the highly conserved motif M94 TGATTTRY sites. The motif matches transcription factor binding site V$GFI1_01 (v7.4 TRANSFAC). | 31 | 0.1047 | 1.29E−17 | 1.12E−15 |
| TGTTTGY_HNF3_Q6 | Genes having at least one occurrence of the highly conserved motif M83 TGTTTGY sites. The motif matches transcription factor binding site V$HNF3_Q6 (v7.4 TRANSFAC). | 46 | 0.0617 | 2.57E−16 | 1.96E−14 |
| TGACATY_UNKNOWN | Genes having at least one occurrence of the highly conserved motif M42 TGACATY in the region spanning up to 4 kb around their transcription start sites. The motif does not match any known transcription factor binding site (v7.4 TRANSFAC). | 43 | 0.064 | 6.84E−16 | 4.64E−14 |
| CTTTAAR_UNKNOWN | Genes having at least one occurrence of the highly conserved motif M29 CTTTAAR in the region spanning up to 4 kb around their transcription start sites. The motif does not match any known transcription factor binding site (v7.4 TRANSFAC). | 52 | 0.0524 | 2.16E−15 | 1.32E−13 |