Table 2.

Lead variants associated with T1D age at onset (GATE).

											Heterogeneity
Chr	BP	rsID	A1	A2	AF_A1	HR	BETA	SE	P	Direction	χ2	P-value	Gene
1	113761186	rs6679677	A	C	0.12	1.31	0.27	0.04	4.34×10−11	+++	1.06	0.588	PTPN22
6	32658525	rs9273364	T	G	0.50	0.39	−0.94	0.03	2.12×10−301	−	32.46	8.92×10−8	HLA-DQB1
10	88287593	rs2018705	T	G	0.77	1.18	0.16	0.03	1.11×10−7	+++	0.27	0.873	RNLS
11	2160994	rs689	A	T	0.30	0.69	−0.37	0.03	2.81×10−28	−	2.54	0.281	INS
12	56124624	rs11171747	T	G	0.64	1.17	0.16	0.03	1.20×10−8	+++	0.57	0.753	ERBB3
12	111270654	rs1265564	A	C	0.58	0.86	−0.15	0.03	1.38×10−7	−	1.46	0.482	SH2B3
18	12857336	rs534911	A	G	0.74	0.85	−0.16	0.03	2.95×10−7	−	0.17	0.917	PTPN2

The number of cases used in the analyses of age at onset is provided in Supplementary Table 1.

Genome Build: GRCh38.

A1—effect allele.

A2—alternative allele.

AF_A1—allele frequency of the effect allele.

HR—hazard ratio.

BETA—effect size.

SE—standard Error of BETA.

P—P-value for meta-analysis of 3 ancestries.

Direction—indication of risk (+), protection (−) or missing SNP (?) for AFR, AMR and EUR.

χ²—heterogeneity statistic from Cochran’s test.

P-value—heterogeneity P-value.

Gene—the nearest or candidate gene.