. Author manuscript; available in PMC: 2014 Jan 1.

Published in final edited form as: Ann Neurol. 2012 Dec 7;73(1):86–94. doi: 10.1002/ana.23749

TABLE 2.

SNPs Associated with the IgG Index

SNP	Chr	Position	Effect Allele	Other Allele	Discovery Series				First Replication Series				Meta-Analysis		Second Replication Series				Meta-Analysis
SNP	Chr	Position	Effect Allele	Other Allele	No.^a	EAF	Beta	p	No.^a	EAF	Beta	p	Beta	p	No.^a	EAF	Beta	p	Beta	p
rs9848578	3	3094310	G	A	229	0.87	0.273	8.8E–06	256	0.85	0.006	9.2E–01	0.142	9.0E–04	—	—	—	—	—	—

rs3816325	5	34682767	G	A	229	0.19	0.230	8.0E–06	255	0.23	−0.046	3.8E–01	0.097	7.2E–03	—	—	—	—	—	—

rs2408007	8	5460838	C	A	229	0.72	0.228	2.7E–07	255	0.77	0.112	3.3E–02	0.181	5.0E–08	153	0.74	30.117	7.8E–2	0.121	4.7E–5

rs7948482	11	128044966	G	A	229	0.18	0.252	8.0E–06	255	0.19	−0.079	1.6E–01	0.090	2.2E–02	—	—	—	—	—	—

rs9582694	13	104026274	C	A	229	0.14	0.262	8.9E–06	256	0.17	−0.082	1.0E–01	0.068	7.5E–02	—	—	—	—	—	—

rs9582695	13	104036436	G	A	229	0.15	0.259	9.7E–06	256	0.17	−0.085	9.4E–02	0.066	8.2E–02	—	—	—	—	—	—

rs34398108	14	106169056	A	G	227	0.27	0.216	2.1E–06	—	—	—	—	—	—	—	—	—	—	—	—

rs11621145^b	14	106172880	G	A	218	0.25	0.223	2.2E–06	254	0.29	0.241	2.5E–07	0.232	6.5E–13	144	0.28	0.157	7.9E–03	0.215	3.1E–14

rs1134590	14	106188230	G	A	226	0.21	0.252	2.6E–06	—	—	—	—	—	—	—	—	—	—	—	—

rs11160868^b	14	106212273	A	G	229	0.24	0.224	9.1E–07	252	0.26	0.247	2.4E–07	0.235	2.5E–13	150	0.26	0.114	5.0E–02	0.206	1.9E–13

rs10136766^b	14	106232585	A	G	224	0.24	0.250	2.6E–07	256	0.27	0.254	3.4E–08	0.252	6.7E–15	149	0.26	0.152	1.2E–02	0.229	7.5E–16

rs34295723	14	106233106	G	A	198	0.27	0.222	8.2E–06	—	—	—	—	—	—	—	—	—	—	—	—

rs12897751	14	106233748	C	G	211	0.25	0.215	3.8E–06	—	—	—	—	—	—	—	—	—	—	—	—

rs12884389	14	106244123	C	A	229	0.24	0.257	5.4E–06	—	—	—	—	—	—	—	—	—	—	—	—

rs2725142^b	14	106249173	G	C	227	0.29	0.217	8.5E–07	254	0.31	0.222	1.4E–06	0.220	1.5E–12	151	0.29	0.062	3.0E–01	0.185	1.5E–11

rs2753571^b	14	106252699	A	C	229	0.29	0.202	4.9E–06	254	0.31	0.227	8.0E–07	0.214	5.8E–12	152	0.29	0.055	3.5E–01	0.180	6.5E–11

rs743931	22	45959540	G	A	229	0.29	0.207	2.6E–06	252	0.28	0.085	1.0E–01	0.157	1.9E–06	—	—	—	—	—	—

SNPs identified in the discovery series as associated with the IgG index (p < 1 × 10⁻⁵) and studied in the first independent replication series.

Number of samples.

SNPs confirmed to be associated with the IgG index in the first and the second independent replication series as well as in a meta-analysis of all 3 patient series.

Chr = chromosome; EAF = effect allele frequency; IgG = gamma globulin; SNP = single nucleotide polymorphism.