Table 2

Association analyses in type 1 diabetes families and case-control sample sets for immune-mediated disease associated polymorphisms.

Published SNP

Set 1 families

Cases and controls


MAF

N parent-child trios (T/NT)

PTDT

Allelic RR [95% CI]

Genotype RR [95% CI]

MAF

N cases/controls

P1df

Allelic OR [95% CI]

Genotype OR [95% CI]


FCRL3 A>G rs7528684

0.46

901 (641/571)

0.04

0.89 [0.80–1.00]

A/A 1.00 [ref] A/G 0.88 [0.75–1.04] G/G 0.79 [0.63–1.00]

0.45

1896/2020

0.97

1.00 [0.91–1.10]

A/A 1.00 [ref] A/G 1.02 [0.87–1.18] G/G 0.99 [0.82–1.20]

CFH A>G rs1061170

0.38

823 (541/517)

0.46

0.96 [0.85–1.08]

A/A 1.00 [ref] A/G 1.00 [0.85–1.17] G/G 0.88 [0.68–1.14]

0.38

3149/3485

0.87

0.99 [0.92–1.07]

A/A 1.00 [ref] A/G 1.07 [0.96–1.19] G/G 0.94 [0.81–1.10]

SLC9A3R1 G>A rs734232

0.45

965 (644/642)

0.96

1.00 [0.90–1.12]

G/G 1.00 [ref] G/A 1.03 [0.88–1.21] A/A 1.00 [0.80–1.25]

0.45

1578/1736

0.34

1.05 [0.95–1.17]

G/G 1.00 [ref] G/A 0.92 [0.78–1.10] A/A 1.14 [0.92–1.41]

PADI4 C>T rs2240340

0.41

942 (610/655)

0.21

1.07 [0.96–1.20]

T/T 1.00 [ref] C/T 1.07 [0.92–1.25] C/C 1.15 [0.92–1.44]

0.42

1573/1732

0.87

1.01 [0.91–1.12]

T/T 1.00 [ref] C/T 1.09 [0.92–1.29] C/C 0.99 [0.80–1.23]

RUNX1 C>G rs2268277

0.34

896 (578/565)

0.70

1.02 [0.91–1.15]

T/T 1.00 [ref] T/C 0.96 [0.83–1.11] C/C 1.12 [0.87–1.43]

0.36

1586/1725

0.21

0.93 [0.84–1.04]

T/T 1.00 [ref] T/C 0.90 [0.76–1.05] C/C 0.90 [0.71–1.14]

SPINK5

+316 A>C ss28514851

0.04

178 (89/91)

0.88

0.98 [0.73–1.31]

A/A 1.00 [ref] A/C 0.98 [0.73–1.31] C/C 0.98 [0.10–9.55]

0.03

1540/1678

0.40

0.88 [0.66–1.18]

A/A 1.00 [ref] A/C 0.88 [0.65–1.19] C/C 0.82 [0.14–4.71]

+1103 T>C rs2303064

0.48

915 (583/602)

0.58

0.97 [0.86–1.09]

T/T 1.00 [ref] T/C 0.99 [0.84–1.17] C/C 0.94 [0.74–1.18]

0.47

1527/1665

0.30

0.95 [0.85–1.05]

T/T 1.00 [ref] T/C 0.96 [0.80–1.14] C/C 0.89 [0.72–1.10]

+1156 G>A rs2303063

0.10

357 (196/213)

0.40

0.92 [0.76–1.12]

G/G 1.00 [ref] G/A 0.93 [0.75–1.15] A/A 0.81 [0.42–1.57]

0.11

1530/1507

0.03 2 df

0.87 [0.73–1.04]

G/G 1.00 [ref] G/A 0.79 [0.64–0.96] A/A 1.48 [0.72–3.03]

+1258 C>T rs2303067

0.48

947 (617/622)

0.89

0.99 [0.89–1.11]

C/C 1.00 [ref] C/T 1.03 [0.87–1.22] T/T 0.98 [0.79–1.23]

0.47

1534/1641

0.36

0.95 [0.85–1.06]

C/C 1.00 [ref] C/T 0.98 [0.82–1.17] T/T 0.90 [0.73–1.12]

+2475 C>A rs2303070

0.07

317 (150/186)

0.05

0.81 [0.65–1.00]

C/C 1.00 [ref] C/A 0.85 [0.68–1.06] A/A 0.15 [0.02–1.13]

0.08

1479/1513

0.06 2 df

0.91 [0.73–1.12]

C/C 1.00 [ref] C/A 0.82 [0.66–1.04] A/A 2.51 [0.81–7.79]

+2915 A>G ss28514856

0.04

184 (92/105)

0.35

0.88 [0.66–1.16]

A/A 1.00 [ref] A/G 0.87 [0.65–1.17] G/G 0.82 [0.22–3.03]

0.03

1547/1685

0.91

0.98 [0.72–1.33]

A/A 1.00 [ref] A/G 0.98 [0.72–1.33] G/G -


MAF: Minor allele frequency, T: transmitted, NT: not transmitted, TDT: transmission/disequilibrium test P value, RR: relative risk, 95% CI: 95% confidence intervals, OR: odds ratio N: number.

Smyth et al. BMC Medical Genetics 2006 7:20   doi:10.1186/1471-2350-7-20

Open Data