Table 1

Meta-analysis results, testing SNPs associated with glycosylation for association with RA

Chr	SNP	SNP position	Locus	Allele 1	Allele 2	Number of studies in meta-analysis	Number of cases	Number of controls	Frequency of allele 1	Beta coefficient	SE	p Value
3	Rs11710456	186725887	ST6GAL1	A	G	11	8875	29 367	0.28	0.017	0.02	0.44
3	Rs7652995	186722944	ST6GAL1	A	G	11	8875	29 367	0.84	0.028	0.02	0.29
5	Rs17348299	55322895	IL6ST-ANKRD55	A	C	11	8875	29 367	0.16	−0.006	0.03	0.84
7	*Rs6421315*	*50355207*	*IKZF1*	G	C	18	*14 361*	*43 923*	0.61	0.05	0.01	0.003
7	Rs1122979	150915071	ABCF2-SMARCD3	A	G	11	8875	29 367	0.12	−0.04	0.0305	0.20
9	*Rs12342831*	*33124872*	*B4GALT1*	T	C	17	*13 964*	*43 524*	0.74	−0.03	0.02	0.07
11	Rs4930561	67931761	SUV420H1	A	G	11	8875	29 367	0.49	0.04	0.02	0.03
14	Rs11847263	65775695	FUT8	T	G	11	8875	29 367	0.66	−0.006	0.02	0.77
22	Rs2186369	24170996	SMARCB1-DERL3	T	G	11	8875	29 367	0.84	0.04	0.03	0.18
22	*Rs909674*	*39859169*	*SYNGR1-TAB1-MGAT3-CACNA1*	A	C	18	*14 361*	*43 923*	0.73	−0.02	0.02	0.23
6	*Rs9296009*	*32114515*	*PRRT1*	A	T	18	*14 361*	*43 923*	0.79	−0.61	0.02	6.92×10⁻²⁶⁶
6	*Rs1049110*	*32726803*	*HLA-DQA2, HLA-DQB2*	*SNP not in data*
6	*Rs404256*	*90657783*	*BACH2*	T	C	18	*14 361*	*43 923*	0.42	0.003	0.02	0.85
7	Rs2072209	107592198	LAMB1	A	G	17	12 841	33 416	0.93	0.03	0.03	0.35
9	Rs4878639	36099399	RECK	T	C	11	8875	29 367	0.72	−0.002	0.02	0.93
12	Rs12828421	7335217	PEX5	T	C	10	7355	18 860	0.48	0.004	0.02	0.84
17	Rs7224668	79235788	SLC38A10	T	C	11	8875	29 367	0.45	−0.02	0.02	0.24

Loci shown in bold italics have previously been associated with RA (different SNP). The LD between the glycosylation SNP and RA SNP in these regions are shown in table 2. SNP p values in the individual studies included in the meta-analysis can be found in online supplementary table S1.
Chr, chromosome; LD, linkage disequilibrium; RA, rheumatoid arthritis.