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Table 3 Genotypes, minor allele frequency, Hardy-Weinberg Equilibrium and single-marker association analysis in all selected SNPs

From: Association between genetic polymorphisms and carotid atherosclerosis in patients treated with radiotherapy for nasopharyngeal carcinoma

Genes SNPs Alleles a (1/2) Genotypes (11/12/22) MAF HWE Corrected P values b 1-β SS 0.8
Additive Dominant Recessive
SOD2 rs4880 G/A 4/24/100 0.1250 0.1065 0.9588 0.9588 0.9588 0.0230 1371
SOD3 rs2536512 A/G 10/60/58 0.3125 0.4103 0.9588 0.9609 0.9588 0.0030 7785
CAT rs769217 T/C 29/69/30 0.4961 0.4792 0.9588 0.9657 0.9588 0.0040 5862
PON1 rs662 T/C 15/49/64 0.3086 0.2986 0.0842 0.0528 0.9588 0.5240 194
  rs705379 T/C 35/49/44 0.4648 0.0124 0.0842 0.0842 0.4988 0.3020 283
PPARG rs3856806 T/C 8/43/77 0.2305 0.6168 0.9588 0.9588 0.9588 0.0130 2072
ADIPOQ rs1501299 T/G 8/56/64 0.2812 0.5107 0.9657 0.9588 0.9588 0.0030 8510
  rs2241766 G/T 9/59/60 0.3008 0.3994 0.9657 0.9657 0.9588 0.0050 5443
IL10 rs1800872 G/T 17/47/64 0.3164 0.1012 0.8279 0.9588 0.5357 0.0660 684
TGFB1 rs1800469 G/A 20/61/47 0.3945 1 0.9588 0.9588 0.9588 0.0100 2632
  rs1800470 A/G 21/61/46 0.4023 1 0.9588 0.9588 0.9588 0.0220 1404
  rs4803455 A/C 20/50/58 0.3516 0.1203 0.9588 0.9588 0.9588 0.0080 3085
NOS3 rs1799983 T/G 1/29/98 0.1211 0.6926 0.9657 0.9813 0.9588 0.0040 5862
  1. aAllele 1 is the minor allele and allele 2 is the major allele.
  2. bCorrected P values after false discovery rate correction for multiple testing (including the 39 tests in the single-marker association analyses between the 13 SNPs and carotid plaque score across the three genetic models).
  3. Post-RT duration and number of cardiovascular risk factors were adjusted using linear regression in all association analyses. Statistical power (1-β) was calculated using the model with smallest observed P value. SS0.8 was the sample size to achieve a statistical power of 0.8 in the corresponding analysis. MAF, minor allele frequency; HWE, Hardy-Weinberg Equilibrium.