Table 1.- Variants (SNPs) included in the PRS calculation
(Disease/Trait: Systemic_lupus_erythematosus)
rsID	Risk allele	Effect size
rs12539741	T	0.747
rs4728142	A	0.565
rs1143679	A	0.833
rs11889341	T	0.405
rs2928402	C	0.329
rs10032909	G	0.884
rs7098187	T	0.963
rs8105429	G	0.255
rs2797780	C	0.315
rs7031325	C	0.372
rs17807624	T	0.270
rs4574684	G	0.293
Effect size: LN(OR)

Table 2.- PRS Score distribution among populations and regions
(Disease/Trait: Systemic_lupus_erythematosus)
	count	mean	sd	se	lower.ci	upper.ci
Pyrenean regions
WEST	168	0.087	0.038	0.003	0.082	0.093
SOUTH	83	0.086	0.033	0.004	0.079	0.094
EAST	146	0.080	0.037	0.003	0.074	0.086
Populations
IBS	107	0.089	0.034	0.003	0.083	0.096
PIR	397	0.085	0.036	0.002	0.081	0.088

Table 3.- Pairwise t-test for PRS score among populations and regions
(Disease/Trait: Systemic_lupus_erythematosus)
group1	group2	n1	n2	p	p.signif	p.adj	p.adj.signif
IBS	PIR	107	397	0.2110	ns	1.000	ns
IBS	WEST	107	168	0.6220	ns	1.000	ns
IBS	SOUTH	107	83	0.5520	ns	1.000	ns
IBS	EAST	107	146	0.0486	*	0.486	ns
WEST	SOUTH	168	83	0.8460	ns	1.000	ns
WEST	EAST	168	146	0.0928	ns	0.928	ns
SOUTH	EAST	83	146	0.2320	ns	1.000	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: Systemic_lupus_erythematosus)
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	−0.640	0.522	.	white	−0.090	0.928	.	white	−0.640	0.522	.	white	−0.040	0.968	.	white
pct75.95	1.290	0.197	.	white	0.430	0.667	.	white	1.290	0.197	.	white	−0.610	0.542	.	white
pct50.75	−1.670	0.095	.	white	−0.670	0.503	.	white	−1.670	0.095	.	white	−1.180	0.238	.	white
pct25.50	0.240	0.810	.	white	−0.440	0.660	.	white	0.240	0.810	.	white	−0.650	0.516	.	white
pct25	0.550	0.582	.	white	0.810	0.418	.	white	0.550	0.582	.	white	2.340	0.019	*
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