Table 1.- Variants (SNPs) included in the PRS calculation
(Disease/Trait: Urinary_bladder_cancer)
rsID Risk allele Effect size
rs9642880 TRUE 0.191
rs710521 TRUE 0.174
Effect size: LN(OR)
Table 2.- PRS Score distribution among populations and regions
(Disease/Trait: Urinary_bladder_cancer)
count mean sd se lower.ci upper.ci
Pyrenean regions
WEST 168 0.104 0.042 0.003 0.098 0.111
SOUTH 83 0.109 0.045 0.005 0.099 0.118
EAST 146 0.103 0.044 0.004 0.096 0.111
Populations
IBS 107 0.100 0.047 0.005 0.091 0.109
PIR 397 0.105 0.043 0.002 0.100 0.109
Table 3.- Pairwise t-test for PRS score among populations and regions
(Disease/Trait: Urinary_bladder_cancer)
group1 group2 n1 n2 p p.signif p.adj p.adj.signif
IBS PIR 107 397 0.335 ns 1 ns
IBS WEST 107 168 0.473 ns 1 ns
IBS SOUTH 107 83 0.183 ns 1 ns
IBS EAST 107 146 0.568 ns 1 ns
WEST SOUTH 168 83 0.430 ns 1 ns
WEST EAST 168 146 0.887 ns 1 ns
SOUTH EAST 83 146 0.375 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: Urinary_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 0.000 1.000 . white 0.000 1.000 . white 0.000 1.000 . white 0.000 1.000 . white
pct75.95 1.640 0.101 . white −0.630 0.529 . white 1.640 0.101 . white 0.010 0.992 . white
pct50.75 −0.570 0.569 . white 0.820 0.412 . white −0.570 0.569 . white 0.390 0.697 . white
pct25.50 0.130 0.897 . white −0.150 0.881 . white 0.130 0.897 . white 0.740 0.459 . white
pct25 −1.000 0.317 . white −0.160 0.873 . white −1.000 0.317 . white −0.930 0.352 . 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