Table 2.
GSEA results for 14 serous EOC risk locus TF-centric gene co-expression networksa
| Serous EOC risk locus | Network hub TF gene | Co-expression network size | Normalized enrichment | Nominal P-value | FDR q-value | Top 5% fold enrichment |
|---|---|---|---|---|---|---|
| 17q21.32 | HOXB2 | 17 | 1.64 | 2.0E-05b | 4.0E-05b | 8.00 |
| 17q21.32 | HOXB7 | 31 | 1.62 | 0b | 5.0E-05b | 4.50 |
| 17q21.32 | HOXB6 | 33 | 1.43 | 5.0E-04 | 3.0E-03 | 4.50 |
| 2q31 | HOXD3 | 52 | 1.39 | 5.0E-04 | 4.9E-03 | 3.67 |
| 17q21.32 | HOXB5 | 30 | 1.37 | 4.0E-03 | 5.1E-03 | 3.00 |
| 2q31 | HOXD1 | 69 | 1.25 | 8.1E-03 | 0.04 | 1.50 |
| 17q21.32 | SP2 | 134 | 1.18 | 7.7E-03 | 0.09 | 1.57 |
| 17q21.32 | HOXB3 | 103 | 1.18 | 0.02 | 0.08 | 2.17 |
| 17q21.32 | TBX21 | 46 | 1.10 | 0.19 | 0.22 | 1.33 |
| 17q21.32 | NFE2L1 | 315 | 1.06 | 0.12 | 0.35 | 1.06 |
| 19p13 | NR2F6 | 312 | 1.04 | 0.23 | 0.43 | 1.50 |
| 8q24 | MYC | 130 | 1.02 | 0.37 | 0.45 | 0.71 |
| 3q25 | SHOX2 | 368 | 1.00 | 0.53 | 0.56 | 0.95 |
| 2q31 | HOXD10 | 85 | 1.00 | 0.52 | 0.52 | 0.80 |
a
Hub-and-spoke networks containing 15 to 500 genes constructed from serous EOC TCGA data.
b
For 50,000 permutations, since nominal P-value = 0 at the default number of 10,000 permutations.