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Table 4 Frequency and effect of gamete, allele-genotype or genotype-genotype combination in each epistasis effect with statistical significance of suggestive linkage.

From: Genome-wide association analysis of total cholesterol and high-density lipoprotein cholesterol levels using the Framingham Heart Study data

Trait SNP1 Chr1 SNP2 Chr2           
      Gamete A-T G-G G-T A-G      
  rs4437278 4 rs705169 10 Frequency 0.0785 0.413 0.434 0.0742      
TC      Effect 0.103 0.0195 -0.0186 -0.108      
      Allele-genotype A-GG G-GT A-TT G-TT A-GT G-GG    
  rs4738150 8 rs16918936 9 Frequency 0.0015 0.0284 0.557 0.374 0.0387 0.001    
      Effect 0.961 0.0917 0.00219 -0.00313 -0.0636 -1.42    
      Gamete A-C G-T G-C A-T      
  rs10476539 5 rs2392885 8 Frequency 0.0538 0.593 0.226 0.127      
      Effect 0.15 0.0137 -0.0359 -0.0635      
      Genotype-genotype GT-GG GG-AG GT-AA TT-AG TT-AA TT-GG GT-AG GG-AA GG-GG
  rs4706271 6 rs6581219 12 Frequency 0.0817 0.0887 0.161 0.169 0.112 0.0619 0.24 0.055 0.0298
      Effect 0.137 0.127 0.0694 0.066 -0.0495 -0.0908 -0.0932 -0.103 -0.189
      Gamete G-G T-A G-A T-G      
HDL-C rs2787520 6 rs7236739 18 Frequency 0.106 0.448 0.241 0.206      
      Effect 0.0946 0.0224 -0.0416 -0.0488      
      Gamete C-A T-G T-A C-G      
  rs2842169 10 rs4756344 11 Frequency 0.0751 0.237 0.661 0.0272      
      Effect 0.0801 0.0253 -0.00908 -0.221      
      Genotype CC-AG CT-AA CT-GG TT-AG TT-GG TT-AA CT-AG CC-GG CC-AA
  rs12596869 16 rs6506699 18 Frequency 0.0501 0.103 0.115 0.208 0.131 0.115 0.215 0.0344 0.0279
      Effect 0.223 0.109 0.0979 0.0535 -0.0433 -0.0494 -0.103 -0.167 -0.197