Table 2 Association analyses in type 1 diabetes cases and controls.

7,497 cases

7,457 (49.7)

7,537 (50.3)

1,827 (24.4)

3,803 (50.7)

1,867 (24.9)

7,496 controls

7,671 (51.2)

7,321 (48.8)

1,928 (25.7)

3,815 (50.9)

1,753 (23.4)

OR (95% CI)

1.00 (reference)

1.07 (1.02–1.12)

1.00 (reference)

1.05 (0.97–1.14)

1.14 (1.04–1.25)

P

7.32 × 10^-3

0.0244

PDCD1

7146G>A (rs11568821)

G

A

GG

GA

AA

7,888 cases

13,966 (88.3)

1,810 (11.7)

6,196 (78.6)

1,574 (20.0)

118 (1.5)

8,858 controls

15,846 (88.5)

1,870 (11.5)

7,088 (80.0)

1,670 (18.9)

100 (1.1)

OR (95% CI)

1.00 (reference)

1.10 (1.02–1.17)

1.00 (reference)

1.08 (1.00–1.17)

1.32 (1.00–1.74)

P

0.0102

0.0268

PDCD1

872C>T (rs2227981)

C

T

CC

CT

TT

5,758 cases

6,699 (58.2)

4,817 (41.8)

1,956 (34.0)

2,787 (48.4)

1,015 (17.6)

7,289 controls

8,440 (57.9)

6,138 (42.1)

2,461 (33.8)

3,518 (48.3)

1,310 (18.0)

OR (95% CI)

1.00 (reference)

1.00 (0.95–1.06)

1.00 (reference)

1.00 (0.92–1.08)

0.97 (0.87–1.07)

P

0.586

0.760

TCF7

Pro19Thr (rs5742913)

C

A

CC

CA

AA

7,434 cases

13,022 (87.6)

1,846 (12.4)

5,709 (76.8)

1,604 (21.6)

121 (1.6)

8,637 controls

15,355 (88.9)

1,919 (11.1)

6,826 (79.0)

1,703 (19.7)

108 (1.3)

OR (95% CI)

1.00 (reference)

1.13 (1.06–1.22)

1.00 (reference)

1.13 (1.04–1.22)

1.32 (1.01–1.73)

P

4.16 × 10^-4

1.91 × 10^-3

IL12B

A1159C (rs3212227)

A

C

AA

AC

CC

4,321 cases

6,898 (79.8)

1,744 (20.2)

2,748 (63.6)

1,402 (32.5)

171 (4.0)

4,711 controls

7,588 (80.5)

1,834 (19.5)

3,050 (64.7)

1,488 (31.6)

173 (3.7)

OR (95% CI)

1.00 (reference)

1.06 (0.98–1.14)

1.00 (reference)

1.06 (0.96–1.16)

1.13 (0.90–1.42)

P

0.134

0.324

IL6

174G>C (rs1800795)

G

C

GG

GC

CC

7,785 cases

8,726 (56.0)

6,844 (44.0)

2,928 (33.1)

4,312 (48.7)

1,612 (18.2)

8,852 controls

10,168 (57.4)

7,536 (42.6)

2,456 (31.6)

3,814 (49.0)

1,515 (19.5)

OR (95% CI)

1.00 (reference)

1.05 (1.01–1.10)

1.00 (reference)

1.04 (0.97–1.12)

1.11 (1.01–1.21)

P

0.0291

0.0879

ICAM1

G241R (rs1799969)

G

A

GG

GA

AA

5,776 cases

10,257 (88.8)

1,295 (11.2)

4,553 (78.8)

1,151 (19.9)

72 (1.3)

6,094 controls

10,787 (88.5)

1,401 (11.5)

4,787 (78.6)

1,213 (19.9)

94 (1.54)

OR (95% CI)

1.00 (reference)

0.96 (0.89–1.05)

1.00 (reference)

1.00 (0.91–1.10)

0.74 (0.54–1.02)

P

0.382

0.179

TBX21

His33Gln (rs2240017)

C

G

CC

CG

GG

4,342 cases

8,456 (97.4)

228 (2.6)

4,116 (94.8)

224 (5.2)

2 (0.1)

4,763 controls

9,293 (97.6)

233 (2.4)

4,533 (95.2)

227 (4.7)

3 (0.1)

OR (95% CI)

1.00 (reference)

1.08 (0.89–1.30)

1.00 (reference)

1.08 (0.88–1.31)

1.10 (0.16–7.54)

P

0.459

0.759

IL23R

Arg381Gln (rs11209026)

G

A

GG

GA

AA

6,087 cases

11,413 (93.7)

761 (6.3)

5,343 (87.8)

727 (11.9)

17 (0.3)

6,303 controls

11,776 (93.4)

830 (6.6)

5,499 (87.2)

778 (12.3)

26 (0.4)

OR (95% CI)

1.00 (reference)

0.93 (0.84–1.03)

1.00 (reference)

0.95 (0.85–1.06)

0.67 (0.36–1.26)

P

0.183

0.285

IRF5

-3835 (rs2004640)

T

G

TT

TG

GG

5,657 cases

5,834 (51.6)

5,480 (48.4)

1,487 (26.3)

2,860 (50.6)

1,310 (23.2)

6,044 controls

6,160 (51.0)

5,928 (49.0)

1,581 (26.2)

2,998 (49.6)

1,465 (24.2)

OR (95% CI)

1.00 (reference)

0.98 (0.93–1.03)

1.00 (reference)

1.03 (0.94–1.12)

0.96 (0.86–1.06)

P

0.451

0.353

CD40

Kozak (rs1883832)

C

T

CC

CT

TT

4,392 cases

6,624 (75.4)

2,160 (24.6)

2,500 (56.9)

1,624 (37.0)

268 (6.1)

4,702 controls

7,132 (75.8)

2,272 (24.2)

2,680 (57.0)

1,772 (37.7)

250 (5.3)

OR (95% CI)

1.00 (reference)

1.03 (0.96–1.10)

1.00 (reference)

0.97 (0.89–1.07)

1.18 (0.97–1.42)

P

0.456

0.162