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Table 3 Summary of genetic association results in the replication

From: Knowledge-based analyses reveal new candidate genes associated with risk of hepatitis B virus related hepatocellular carcinoma

 CHRSNPBPCADD.CScoreSuRFRFunSeq2HCCCell_ProbRegulomeDBA1A2AdditiveaDominantaRecessivea
 OR (95% CI)pOR (95% CI)pOR (95% CI)p
 1rs3813948207,269,858−0.03914.3560.76350.7965CT1.04 (0.87–1.24)0.6681.02 (0.83–1.25)0.8451.27 (0.72–2.23)0.412
 2rs6032540216,077,8730.14417.30.18520.3705AT0.85 (0.59–1.21)0.3600.83 (0.58–1.19)0.319- b0.999
 3rs7612684178,984,575−0.16319.3340.81090.3704GA0.79 (0.59–1.05)0.1050.76 (0.56–1.03)0.0801.53 (0.23–10.01)0.657
 3rs76863563178,987,536−0.49815.4930.18810.3705CT0.91 (0.66–1.26)0.5670.89 (0.64–1.24)0.5062.00 (0.17–24.06)0.587
 5rs11696623557,794,613−0.636.0.18520.3703aGA1.07 (0.79–1.46)0.6701.06 (0.78–1.45)0.705- b0.999
 5rs125146191,783,6551.7417.5562.7050.3702bCT1.10 (0.94–1.28)0.2521.06 (0.87–1.28)0.5631.45 (0.96–2.20)0.078
 6rs38988331,947,4600.14214.2131.6230.3701fGT0.86 (0.75–0.98)0.0260.86 (0.71–1.03)0.1080.73 (0.55–0.97)0.032
 6rs61567232,574,171−0.1624.6270.79720.3706GC0.93 (0.81–1.07)0.2930.98 (0.81–1.17)0.7950.74 (0.54–1.01)0.056
 7rs173436676,065,1940.39215.5430.88980.3701fAG1.11 (0.96–1.27)0.1511.27 (1.04–1.55)0.0200.97 (0.76–1.24)0.792
 7rs5574417518,332,3962.27517.1950.69090.3705AG1.05 (0.90–1.24)0.5241.07 (0.89–1.30)0.4741.02 (0.65–1.62)0.924
 8rs16898013124,138,8910.78017.31400.3703aAG0.85 (0.63–1.16)0.3060.85 (0.61–1.16)0.3040.82 (0.11–6.23)0.847
 8rs227595937,455,0590.2456.3770.31140.8634AG0.98 (0.86–1.12)0.7911.02 (0.83–1.25)0.8540.93 (0.74–1.16)0.503
 8rs273602015,714,529−0.0023.9779.418E-1610.3707CT1.09 (0.94–1.25)0.2551.13 (0.93–1.36)0.2091.06 (0.79–1.44)0.687
 10rs300171910,409,365−0.1133.2770.18520.3705GT1.08 (0.94–1.25)0.2881.11 (0.92–1.34)0.2611.08 (0.76–1.52)0.674
 11rs1089724362,043,174−0.49715.5114.535E-330.3706GC0.92 (0.79–1.08)0.3110.93 (0.77–1.13)0.4680.81 (0.55–1.20)0.296
 12rs7947504539,083,557−0.26415.8220.18810.3705TG0.88 (0.73–1.06)0.1890.91 (0.74–1.12)0.3770.55 (0.29–1.06)0.072
 12rs979722118,217,3040.01415.8990.43650.3707CT1.05 (0.91–1.20)0.5121.05 (0.87–1.27)0.5971.09 (0.81–1.46)0.577
 16rs1291837656,558,181−0.02512.0434.562E-740.3706TG1.11 (0.96–1.27)0.1531.11 (0.91–1.35)0.3031.19 (0.92–1.54)0.182
 20rs242504633,871,6610.09017.7871.780.9182bCT0.98 (0.77–1.24)0.8480.92 (0.72–1.19)0.5402.20 (0.79–6.14)0.134
  1. Note. CHR chromosome, BP base pairs, OR odd ratio, CI confidence interval, A1 minor allele, A2 major allele, CADD.CScore, SuRFR and FunSeq2 scores are annotated by KGGSeq (V1.0). HCCCell_Prob: Probability of cell type-specific regulation in GENCODE liver cancer cells (HepG2)
  2. a This model was tested under Logistic regression model with adjustment for age and sex
  3. b The value is not available