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. Author manuscript; available in PMC: 2016 Jun 3.
Published in final edited form as: Gynecol Oncol. 2014 Dec 17;136(3):542–548. doi: 10.1016/j.ygyno.2014.12.017

Table 2B.

Gene-level AML test and most significantly associated SNP (MAFa ≥ 0.05) in each gonadotropin signaling gene for invasive endometrioid and clear cell ovarian cancers.

Gene Coverage
(at r2 ≥ 0.8)		 Endometrioid (n = 2148)
Clear cell (n = 1013)
No. of
signif.
SNPs		 AML
burden
testb 		Most significant
SNP		 MAFa Imput.
r2 		ORc p-Value No. of
signif.
SNPs		 AML
burden
testb 		Most significant
SNP		 MAFa Imput.
r2 		ORc p-Value
ACVR1 0.55 2 0.47 chr2:158719453:D 0.06 0.85 1.14 0.042 0 0.87 N/A – – – –
ACVR2 0.98 1 0.25 rs17742573 0.07 0.56 0.84 0.045 12 0.21 rs55816333 0.42 0.97 0.89 0.018
CGA 0.97 0 0.95 N/A – – – – 0 0.58 N/A – – – –
FSHB 0.99 27 0.063 rs7951733 0.08 0.95 0.76 4.62 × 10-5 0 0.46 N/A – – – –
FSHR 0.90 19 0.34 rs191446440 0.05 0.62 1.30 0.002 45 0.20 rs55926033 0.12 0.87 1.21 0.007
GNRH 1.00 0 0.13 N/A – – – – 1 0.35 chr8:25290793:D 0.09 0.55 1.23 0.038
GNRHR 0.94 2 0.53 rs148964181 0.13 0.55 1.12 0.045 3 0.31 rs17637021 0.17 0.52 1.18 0.026
INHA 0.86 3 0.14 rs6436158 0.40 0.52 0.91 0.042 0 0.86 N/A – – – –
INHBA 1.00 0 0.58 N/A – – – – 0 0.94 N/A – – – –
INHBB 0.82 15 0.16 rs12475606 0.47 0.55 0.90 0.016 2 0.70 rs4528762 0.26 0.60 0.81 0.003
LHCGR 0.97 8 0.65 rs4293599 0.20 1.00 1.12 0.005 9 0.69 rs3884614 0.07 0.66 1.29 0.005
Global – 77 0.33 – – – – – 72 0.53 – – – – –

Note: “N/A” reflects genes with no significant SNPs at p ≥ 0.05. “Global” refers to when all genes are considered.

a

MAF = minor allele frequency.

b

AML = admixture maximum likelihood, taking into account the first five ancestry principal components; p-values for trend reported.

c

OR = per allele odds ratio, taking into account study set and the first five ancestry principal components.