Table 1.

Minimum P value for the association of selected genes and surrounding regions with VTE

GroupGeneEncoded proteinNo. of variantsNo. of variants exceeding thresholdPosition (Chr:marker:alleles)FreqβStd ErrMinimum P value
Pos F2 Prothrombin 498 66 11:46761055:G:A 0.014 0.676 0.024 1.01E-175 
Pos F5 Factor V 1179 279 1:169519049:C:T 0.026 1.090 0.016 <1.00E-300 
Pos FGG Fibrinogen γ-chain 527 136 4:155525695:G:A 0.256 0.204 0.006 2.86E-242 
Pos PROC Protein C 749 141 2:128140500:G:T 0.670 −0.070 0.006 5.68E-33 
Pos SERPINC1 Antithrombin 594 24 1:173882980:G:A 0.137 −0.049 0.009 9.59E-09 
Neg KRT14 Keratin 14 626 0 17:39763940:T:C 0.981 −0.391 0.132 2.98E-03 
Neg MC1R Melanocortin 1 receptor 904 0 16:90027806:C:T 0.022 0.109 0.031 3.91E-04 
Neg NGF Nerve growth factor 1106 0 1:115902240:C:T 0.180 0.033 0.008 1.78E-05 
Neg PRX Periaxin 737 0 19:40932707:C:T 0.015 0.304 0.100 2.45E-03 
Neg TGM5 Transglutaminase 5 515 1 15:43580645:C:T 0.039 −0.082 0.016 4.84E-07 
Hyp CPB2 TAFI 948 0 13:46716076:C:T 0.790 −0.027 0.007 1.83E-04 
Hyp PLAT tPA 755 0 8:42055986:C:T 0.074 −0.057 0.012 4.70E-06 
Hyp PLAU uPA 606 0 10:75673101:C:T 0.254 0.027 0.007 4.86E-05 
Hyp PLAUR uPAR 928 0 19:44109067:G:A 0.047 0.054 0.018 2.75E-03 
Hyp PLG Plasminogen 1249 0 6:161152905:C:T 0.013 0.103 0.028 2.60E-04 
Hyp SERPINB2 PAI-2 974 0 18:61493352:C:T 0.046 0.104 0.041 1.07E-02 
Hyp SERPINE1 PAI-1 922 0 7:100746344:C:T 0.149 0.033 0.008 3.91E-05 
Hyp SERPINF2 α2-antiplasmin 871 1 17:1639350:C:T 0.031 0.082 0.018 3.00E-06 
GroupGeneEncoded proteinNo. of variantsNo. of variants exceeding thresholdPosition (Chr:marker:alleles)FreqβStd ErrMinimum P value
Pos F2 Prothrombin 498 66 11:46761055:G:A 0.014 0.676 0.024 1.01E-175 
Pos F5 Factor V 1179 279 1:169519049:C:T 0.026 1.090 0.016 <1.00E-300 
Pos FGG Fibrinogen γ-chain 527 136 4:155525695:G:A 0.256 0.204 0.006 2.86E-242 
Pos PROC Protein C 749 141 2:128140500:G:T 0.670 −0.070 0.006 5.68E-33 
Pos SERPINC1 Antithrombin 594 24 1:173882980:G:A 0.137 −0.049 0.009 9.59E-09 
Neg KRT14 Keratin 14 626 0 17:39763940:T:C 0.981 −0.391 0.132 2.98E-03 
Neg MC1R Melanocortin 1 receptor 904 0 16:90027806:C:T 0.022 0.109 0.031 3.91E-04 
Neg NGF Nerve growth factor 1106 0 1:115902240:C:T 0.180 0.033 0.008 1.78E-05 
Neg PRX Periaxin 737 0 19:40932707:C:T 0.015 0.304 0.100 2.45E-03 
Neg TGM5 Transglutaminase 5 515 1 15:43580645:C:T 0.039 −0.082 0.016 4.84E-07 
Hyp CPB2 TAFI 948 0 13:46716076:C:T 0.790 −0.027 0.007 1.83E-04 
Hyp PLAT tPA 755 0 8:42055986:C:T 0.074 −0.057 0.012 4.70E-06 
Hyp PLAU uPA 606 0 10:75673101:C:T 0.254 0.027 0.007 4.86E-05 
Hyp PLAUR uPAR 928 0 19:44109067:G:A 0.047 0.054 0.018 2.75E-03 
Hyp PLG Plasminogen 1249 0 6:161152905:C:T 0.013 0.103 0.028 2.60E-04 
Hyp SERPINB2 PAI-2 974 0 18:61493352:C:T 0.046 0.104 0.041 1.07E-02 
Hyp SERPINE1 PAI-1 922 0 7:100746344:C:T 0.149 0.033 0.008 3.91E-05 
Hyp SERPINF2 α2-antiplasmin 871 1 17:1639350:C:T 0.031 0.082 0.018 3.00E-06 

Chr, chromosome; Freq, frequency; Hyp, hypothesis-based genes; Neg, negative control; PAI, plasminogen activator inhibitor; Pos, positive control; Std Err, standard error; TAFI, thrombin activatable fibrinolysis inhibitor; tPA, tissue plasminogen activator; uPA, urokinase plasminogen activator; uPAR, urokinase plasminogen activator receptor.

Significance was determined using a Bonferroni-corrected P value (P < 3.4 × 10–6, .05/14 688 variants tested)

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