Anti-citrullinated peptide/protein antibody (ACPA)-negative RA shares a large proportion of susceptibility loci with ACPA-positive RA: a meta-analysis of genome-wide association study in a Japanese population

Table 2 Association of the top 3 SNPs with ACPA-negative RA among the 35 replicated SNPs

SNP	Chr	Position	Gene	Exon/intron	Ref	Var	GWAS				Replication study			Combined study
SNP	Chr	Position	Gene	Exon/intron	Ref	Var	Beta	SE	P	I ² (%)	Beta	SE	P	P	OR (95% CI)	I ² (%)
rs6904716	6	33849267	LEMD2	intron	A	G	−0.309	0.074	2.7 × 10⁻⁵	0	−0.219	0.061	0.00036	5.7 × 10⁻⁸	0.77 (0.70, 0.85)	0
rs6986423	8	4621823	CSMD1	intron	G	T	−0.248	0.057	1.4 × 10⁻⁵	55.9	−0.128	0.053	0.017	2.4 × 10⁻⁶	0.83 (0.77, 0.90)	61.3
rs17727339	1	155946738	FCRL3	-	C	T	−0.262	0.066	8.0 × 10⁻⁵	0	−0.142	0.063	0.025	1.4 × 10⁻⁵	0.82 (0.75, 0.90)	0

SNP, single nucleotide polymorphism; ACPA, anti-citrullinated peptide/protein antibody; RA, rheumatoid arthritis; GWAS, genome-wide association studies; OR, odds ratio; Chr, chromosome; Ref, reference; Var, variance; SE, standard error.

ISSN: 1478-6362