Genome-wide association study identifies novel loci associated with skin autofluorescence in individuals without diabetes

Vollenbrock, Charlotte E.; Roshandel, Delnaz; van der Klauw, Melanie M.; Wolffenbuttel, Bruce H. R.; Paterson, Andrew D.

doi:10.1186/s12864-022-09062-x

Table 2 GWAS TopSNPs results of model 1, 2, 3 and 4

From: Genome-wide association study identifies novel loci associated with skin autofluorescence in individuals without diabetes

Model	SNP	Chr	Position (bp)	Alleles^a		Locus/nearest gene(s)	GSA GWAS			CytoSNP GWAS			Meta-analysis
				Minor	Ref		MAF	p value	B (SE)	MAF	p value	B (SE)	p value	B (SE)	Het. p value
1	rs12931267	16	89,818,732	G	C	FANCA	0.07	2.3 × 10⁻¹³	0.025 (0.003)	0.07	2.1 × 10⁻⁰⁸	0.026 (0.005)	3.0 × 10⁻²⁰	0.025 (0.003)	0.89
	rs2846707	11	102,576,358	T	C	MMP27	0.35	4.9 × 10⁻¹¹	-0.012 (0.002)	0.35	9.2 × 10⁻⁰⁵	-0.010 (0.002)	2.7 × 10⁻¹⁴	-0.011 (0.002)	0.46
	rs2470893	15	75,019,449	T	C	CYP1A1	0.34	8.9 × 10⁻⁰⁹	0.011 (0.002)	0.33	1.5 × 10⁻⁰⁵	0.011 (0.002)	6.6 × 10⁻¹³	0.011 (0.002)	1.00
	rs576201050	8	18,288,053	A	G	NAT2	0.01	7.3 × 10⁻⁰⁷	-0.044 (0.009)	0.01	1.5 × 10⁻⁰⁵	-0.053 (0.012)	3.6 × 10⁻¹¹	-0.047 (0.007)	0.55
2	rs12931267	16	89,818,732	G	C	FANCA	0.07	1.3 × 10⁻¹³	0.025 (0.003)	0.07	2.0 × 10⁻⁰⁸	0.026 (0.005)	2.5 × 10⁻²⁰	0.025 (0.003)	0.93
	rs2846707	11	102,576,358	T	C	MMP27	0.35	4.4 × 10⁻¹¹	-0.012 (0.002)	0.35	9.8 × 10⁻⁰⁵	-0.010 (0.002)	2.4 × 10⁻¹⁴	-0.011 (0.002)	0.45
	rs2470893	15	75,019,449	T	C	CYP1A1	0.34	6.7 × 10⁻⁰⁹	0.011 (0.002)	0.33	1.4 × 10⁻⁰⁵	0.011 (0.002)	5.4 × 10⁻¹³	0.011 (0.002)	0.99
	rs576201050	8	18,288,053	A	G	NAT2	0.01	5.8 × 10⁻⁰⁷	-0.044 (0.009)	0.01	1.3 × 10⁻⁰⁵	-0.053 (0.012)	2.5 × 10⁻¹¹	-0.047 (0.007)	0.55
3	rs12931267	16	89,818,732	G	C	FANCA	0.07	5.8 × 10⁻¹⁵	0.026 (0.003)	0.07	1.6 × 10⁻⁰⁸	0.026 (0.005)	4.3 × 10⁻²²	0.026 (0.003)	0.91
	rs2846707	11	102,576,358	T	C	MMP27	0.35	5.7 × 10⁻¹¹	-0.012 (0.002)	0.35	5.2 × 10⁻⁰⁵	-0.011 (0.002)	2.4 × 10⁻¹⁴	-0.011 (0.002)	0.85
	rs2470893	15	75,019,449	T	C	CYP1A1	0.34	3.5 × 10⁻⁰⁵	0.008 (0.002)	0.33	2.3 × 10⁻⁰³	0.008 (0.002)	3.0 × 10⁻⁷	0.008 (0.002)	0.97
	rs576201050	8	18,288,053	A	G	NAT2	0.01	1.6 × 10⁻⁰⁷	-0.046 (0.009)	0.01	1.8 × 10⁻⁰⁵	-0.052 (0.012)	8.7 × 10⁻¹²	-0.048 (0.007)	0.67
4	rs12931267	16	89,818,732	G	C	FANCA	0.07	3.3 × 10⁻¹¹	0.023 (0.003)	0.07	2.2 × 10⁻⁰⁷	0.024 (0.005)	3.2 × 10⁻¹⁷	0.023 (0.003)	0.83
	rs2846707	11	102,576,358	T	C	MMP27	0.35	6.3 × 10⁻¹¹	-0.012 (0.002)	0.35	3.8 × 10⁻⁰⁶	-0.011 (0.002)	1.1 × 10⁻¹⁵	-0.012 (0.002)	0.90
	rs2470893	15	75,019,449	T	C	CYP1A1	0.34	2.8 × 10⁻⁰⁵	0.008 (0.002)	0.33	2.8 × 10⁻⁰³	0.007 (0.002)	2.9 × 10⁻⁷	0.008 (0.002)	0.92
	rs576201050	8	18,288,053	A	G	NAT2	0.01	1.3 × 10⁻⁰⁷	-0.046 (0.009)	0.01	1.8 × 10⁻⁰⁵	-0.052 (0.012)	7.7 × 10⁻¹²	-0.048 (0.007)	0.69

Genome-wide significance, p < 5 × 10⁻⁸
^aAlleles are aligned to the forward strand of NCBI Build 37
Chr., chromosome; Ref., reference; MAF, minor allele frequency; Het. heterogeneity p value: p value from METAL’s heterogeneity analysis
Model 1 was adjusted for sex, smoking status, source of inclusion into the Lifelines cohort, age, age squared, body mass index (BMI), eGFR, rs1495741 homozygosity for the G allele and rs1495741 heterozygosity [16]. Model 2, was adjusted for all parameters of model 1 and HbA1c; Model 3, all parameters of model 2 and coffee drinking status and the number of cups of coffee per day; Model 4, Model 3 plus UV-reflectance as an additional covariate

Back to article page

ISSN: 1471-2164

Contact us

Submission enquiries: bmcgenomics@biomedcentral.com
General enquiries: ORSupport@springernature.com

BMC Genomics

Contact us