Table 1.- Variants (SNPs) included in the PRS calculation
(Disease/Trait: Craniofacial_microsomia)
rsID	Risk allele	Effect size
rs13089920	A	1.645
rs10459648	T	0.462
rs11263613	G	0.519
rs3754648	G	0.329
rs17090300	G	0.837
rs7420812	T	0.285
rs10905359	A	0.274
rs754423	C	0.239
rs4750407	A	0.239
rs7222240	G	0.548
Effect size: LN(OR)

Table 2.- PRS Score distribution among populations and regions
(Disease/Trait: Craniofacial_microsomia)
	count	mean	sd	se	lower.ci	upper.ci
Pyrenean regions
WEST	168	0.400	0.060	0.005	0.391	0.409
SOUTH	83	0.394	0.054	0.006	0.383	0.406
EAST	146	0.406	0.058	0.005	0.396	0.415
Populations
IBS	107	0.398	0.056	0.005	0.387	0.409
PIR	397	0.401	0.058	0.003	0.395	0.407

Table 3.- Pairwise t-test for PRS score among populations and regions
(Disease/Trait: Craniofacial_microsomia)
group1	group2	n1	n2	p	p.signif	p.adj	p.adj.signif
IBS	PIR	107	397	0.653	ns	1	ns
IBS	WEST	107	168	0.776	ns	1	ns
IBS	SOUTH	107	83	0.668	ns	1	ns
IBS	EAST	107	146	0.313	ns	1	ns
WEST	SOUTH	168	83	0.466	ns	1	ns
WEST	EAST	168	146	0.411	ns	1	ns
SOUTH	EAST	83	146	0.165	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: Craniofacial_microsomia)
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	−1.080	0.280	.	white	0.620	0.535	.	white	−1.080	0.280	.	white	1.070	0.285	.	white
pct75.95	0.400	0.689	.	white	1.250	0.211	.	white	0.400	0.689	.	white	0.940	0.347	.	white
pct50.75	0.530	0.596	.	white	−0.210	0.834	.	white	0.530	0.596	.	white	0.550	0.582	.	white
pct25.50	−0.750	0.453	.	white	−0.500	0.617	.	white	−0.750	0.453	.	white	−1.280	0.201	.	white
pct25	0.280	0.779	.	white	−0.730	0.465	.	white	0.280	0.779	.	white	−0.690	0.490	.	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