Table 1: Significant HLA allele associations.

Associations in the discovery data set with P < 0.05/155 (the number of alleles tested), replicated associations with P < 0.05, and associations in the combined discovery+replication data set with P<0.05/155 in any of the ancestry groups, are included in this table. P-values < 0.05 are in bold font.

	All		African		European		Hispanic/Latino
Allele	Beta [95% CI]	P	Beta [95% CI]	P	Beta [95% CI]	P	Beta [95% CI]	P
Discovery
A*02:01	−0.06 [−0.08,−0.03]	2×10−4	−0.06 [−0.15,0.03]	2×10−1	−0.05 [−0.09,−0.02]	6×10 −4
DQA1*03:01	−0.07 [−0.10,−0.03]	4×10 −5	−0.02 [−0.10,0.06]	6×10−1	−0.06 [−0.10,−0.02]	2×10 −3	−0.16 [−0.25,−0.07]	3×10 −4
DQA1*05:01	0.06 [0.03,0.09]	7×10 −5	0.04 [−0.02,0.11]	2×10−1	0.06 [0.02,0.09]	2×10 −3	0.12 [0.03,0.20]	1×10 −2
DQB1*03:01	0.06 [0.03,0.09]	3×10 −5	0.05 [−0.01,0.11]	8×10−2	0.06 [0.03,0.09]	5×10 −4	0.07 [−0.02,0.16]	1×10−1
DQB1*03:03	−0.08 [−0.13,−0.04]	2×10 −4	−0.18 [−0.34,−0.02]	2×10 −2	−0.07 [−0.12,−0.02]	3×10 −3	−0.19 [−0.43,0.06]	1×10−1
DRB1*04:04	−0.13 [−0.19,−0.07]	1×10 −5	0.00 [−0.30,0.31]	1.00	−0.15 [−0.21,−0.09]	3×10 −6	−0.01 [−0.23,0.21]	9×10−1
DRB1*11:01	0.08 [0.04,0.12]	2×10 −4	0.10 [0.02,0.19]	2×10 −2	0.07 [0.02,0.12]	6×10 −3	0.10 [−0.06,0.26]	2×10−1
Replication
A*02:01	−0.05 [−0.08,−0.02]	5×10 −4	−0.08 [−0.15,−0.00]	4×10 −2	−0.06 [−0.09,−0.02]	4×10 −3	−0.03 [−0.07,0.02]	3×10−1
DQA1*03:01	−0.08 [−0.12,−0.05]	4×10 −6	−0.11 [−0.24,0.02]	1×10−1	−0.06 [−0.11,−0.01]	2×10 −2	−0.10 [−0.16,−0.05]	1×10 −4
DQA1*05:01	0.03 [−0.01,0.06]	2×10−1	−0.03 [−0.11,0.05]	5×10−1	0.02 [−0.02,0.07]	3×10−1	0.07 [−0.00,0.14]	7×10−2
DQB1*03:01	0.02 [−0.01,0.04]	2×10−1	0.06 [−0.01,0.13]	1×10−1	0.03 [−0.01,0.07]	2×10−1	−0.01 [−0.05,0.04]	7×10−1
DQB1*03:03	−0.04 [−0.08,0.01]	2×10−1	−0.10 [−0.30,0.10]	3×10−1	−0.03 [−0.10,0.03]	3×10−1	−0.03 [−0.10,0.05]	5×10−1
DRB1*04:04	−0.01 [−0.10,0.08]	8×10−1	−0.10 [−0.76,0.55]	8×10−1	0.04 [−0.07,0.15]	5×10−1	−0.13 [−0.29,0.04]	1×10−1
DRB1*11:01	0.03 [−0.01,0.07]	2×10−1	0.03 [−0.06,0.12]	5×10−1	0.05 [−0.01,0.11]	8×10−2	−0.00 [−0.07,0.07]	9×10−1
Ancestry
A*02:01			−0.07 [−0.13,−0.01]	2×10 −2	−0.05 [−0.08,−0.03]	8×10 −6	−0.03 [−0.07,0.02]	3×10−1
A*29:02			0.06 [−0.05,0.16]	3×10−1	0.09 [0.04,0.14]	2×10 −4	0.02 [−0.06,0.10]	6×10−1
B*40:01			−0.11 [−0.26,0.03]	1×10−1	−0.09 [−0.14,−0.05]	3×10 −5	−0.03 [−0.23,0.18]	8×10−1
C*03:04			−0.03 [−0.10,0.04]	3×10−1	−0.07 [−0.11,−0.04]	1×10 −4	−0.01 [−0.07,0.05]	8×10−1
DPB1*03:01			−0.09 [−0.18,−0.01]	3×10 −2	−0.06 [−0.09,−0.03]	2×10 −4	−0.02 [−0.09,0.06]	6×10−1
DQA1*03:01			−0.04 [−0.11,0.02]	2×10−1	−0.06 [−0.09,−0.03]	1×10 −4	−0.12 [−0.16,−0.07]	3×10 −7
DRB1*04:04			−0.01 [−0.29,0.26]	9×10−1	−0.10 [−0.16,−0.05]	2×10 −4	−0.08 [−0.21,0.05]	2×10−1
DQB1*03:02			−0.04 [−0.12,0.04]	3×10−1	−0.03 [−0.07,−0.00]	3×10 −2	−0.12 [−0.16,−0.08]	8×10 −8