Table 1.- Variants (SNPs) included in the PRS calculation
(Disease/Trait: Bladder_cancer)
rsID Risk allele Effect size
rs9642880 T 0.215
rs2204008 T 0.122
rs8102137 C 0.122
rs710521 T 0.131
rs401681 C 0.113
rs10936599 C 0.163
rs907611 A 0.140
rs11892031 A 0.157
rs4510656 C 0.117
Effect size: LN(OR)
Table 2.- PRS Score distribution among populations and regions
(Disease/Trait: Bladder_cancer)
count mean sd se lower.ci upper.ci
Pyrenean regions
WEST 168 0.080 0.015 0.001 0.078 0.083
SOUTH 83 0.079 0.017 0.002 0.075 0.082
EAST 146 0.078 0.016 0.001 0.076 0.081
Populations
IBS 107 0.079 0.017 0.002 0.076 0.082
PIR 397 0.079 0.016 0.001 0.078 0.081
Table 3.- Pairwise t-test for PRS score among populations and regions
(Disease/Trait: Bladder_cancer)
group1 group2 n1 n2 p p.signif p.adj p.adj.signif
IBS PIR 107 397 0.972 ns 1 ns
IBS WEST 107 168 0.566 ns 1 ns
IBS SOUTH 107 83 0.777 ns 1 ns
IBS EAST 107 146 0.708 ns 1 ns
WEST SOUTH 168 83 0.402 ns 1 ns
WEST EAST 168 146 0.295 ns 1 ns
SOUTH EAST 83 146 0.964 ns 1 ns
* p < .05, ** p < .01, *** p < .001
Table 4.- Chi-square test comparison of percentile counts on Pyrenean regions compared to Iberian peninsula population
(Disease/Trait: Bladder_cancer)
Percentile rank PIR WEST SOUTH EAST
adj.std.val p.value sig.val adj.std.val p.value sig.val adj.std.val p.value sig.val adj.std.val p.value sig.val
pct95 1.070 0.285 . white 0.410 0.682 . white 1.070 0.285 . white 0.640 0.522 . white
pct75.95 −1.470 0.142 . white 0.220 0.826 . white −1.470 0.142 . white −0.450 0.653 . white
pct50.75 0.380 0.704 . white −0.040 0.968 . white 0.380 0.704 . white −0.360 0.719 . white
pct25.50 0.810 0.418 . white 0.560 0.575 . white 0.810 0.418 . white 0.830 0.407 . white
pct25 −0.420 0.674 . white −0.900 0.368 . white −0.420 0.674 . white −0.360 0.719 . white
adj.std.val: Adjusted standardized residuals value; p.value: P value; sig.val: statistical significance, * p < .05, ** p < .01, *** p < .001; red dash to bottom: lower counts than reference; green dash to up: upper counts than reference