Table 3.
Summary of statistically significant or suggestive results for fine mapping in African ancestry women of loci previously identified in GWAS of European ancestry women
| EOC | HGSC1 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Locus | SNP ID | Build 37 Chr:Pos | Nearest gene | Phenotype | Number of SNPs Plotted |
Minimum SNP position in region | Minimum SNP p value | Number of SNPs plotted |
Minimum SNP position in region | Minimum SNP p value |
| Confirmed SNPs in European ancestry OncoArray meta-analysis | ||||||||||
| 8q21.13 | rs76837345 | 8:82668818 | CHMP4C | HGSC | 4,045 | chr8:82866267 | 1.44E-053 | 3,523 | chr8:82866267 | 3.98E-062 |
| 9p22.2 | Rs10962692 | 9:16915874 | BNC2 | HGSC | 5,248 | chr9:16978052 | 2.67E-053 | 4,746 | chr9:16986321 | 5.57E-05 |
| Newly identified SNPs in European ancestry OncoArray meta-analysis | ||||||||||
| 3q22.3 | Rs112071820 | 3:138849110 | BPESC1 | Mucinous | 2,922 | chr3:138839642 | 3.34E-053 | – | – | – |
| 10q24.33 | rs7902587 | 10:105694301 | LOC102724351 | Serous borderline, LGSC | 3,192 | chr10:105375295 | 3.40E-053 | 2,852 | chr10:105300054 | 1.03E-03 |
| 12q24.31 | rs7953249 | 12:121403724 | HNF1A-AS1 | HGSC | 3,680 | chr12:121113096 | 6.90E-05 | 3,272 | chr12:121113096 | 2.51E-053 |
| 18q11.2 | rs8098244 | 18:21405553 | LAMA3 | Serous borderline, LGSC | 2,685 | chr18:21555816 | 1.84E-052 | 2,431 | chr18:21555816 | 6.19E-05 |
1
Fine mapping among HGSC was completed only for those SNPs associated with serous ovarian cancer.
2
Significant at the Bonferroni threshold (0.05/number of SNPs plotted).
3
Significant at the suggestive threshold (0.05/[number of SNPs plotted/3]).
Abbreviations: Chr, chromosome; EOC, epithelial ovarian cancer; HGSC, high-grade serous ovarian cancer; LGSC, low-grade serous ovarian cancer; Pos, position; SNP, single nucleotide polymorphism.