Table 2

Genotype and allele counts (and frequencies) in CD patients and in controls

SNP

Location

gene

CASE

CONTROL

p

CASE

CONTROL

p


rs182221

56, 599, 221

MT4

G/G

262 (0.66)

398 (0.64)

0.87

G

646 (0.81)

995 (0.80)

0.72

C/G

122 (0.31)

199 (0.32)

C

154 (0.19)

247 (0.20)

C/C

16 (0.04)

24 (0.04)

rs666636

56, 601, 720

MT4

G/G

386 (0.95)

599 (0.95)

0.70*

G

791 (0.98)

1229 (0.97)

0.55

A/G

19 (0.05)

31 (0.05)

A

19 (0.02)

35 (0.03)

A/A

0 (0.00)

2 (0.00)

rs666647

56, 601, 722

MT4

C/C

386 (0.95)

605 (0.95)

0.73*

C

791 (0.98)

1241 (0.97)

0.58

C/T

19 (0.05)

31 (0.05)

T

19 (0.02)

35 (0.03)

T/T

0 (0.00)

2 (0.00)

rs669293

56, 602, 352

MT4

T/T

293 (0.73)

428 (0.67)

0.16

T

686 (0.85)

1039 (0.82)

0.051

C/T

100 (0.25)

283 (0.29)

C

120 (0.15)

231 (0.18)

C/C

10 (0.02)

24 (0.04)

rs762604

56, 602, 671

MT4

C/C

183 (0.45)

302 (0.48)

0.18

C

538 (0.67)

878 (0.70)

0.15

C/T

172 (0.43)

274 (0.44)

T

268 (0.33)

380 (0.30)

T/T

48 (0.12)

53 (0.08)

rs11643815

56, 602, 798

MT4

G/G

307 (0.76)

482 (0.76)

0.53

G

700 (0.86)

1102 (0.87)

0.61

A/G

86 (0.21)

138 (0.22)

A

110 (0.14)

162 (0.13)

A/A

12 (0.03)

12 (0.02)

rs11644094

56, 624, 079

MT3

A/A

134 (0.34)

220 (0.35)

0.90

A

460 (0.58)

736 (0.58)

0.79

A/G

192 (0.48)

295 (0.47)

G

338 (0.42)

527 (0.42)

G/G

73 (0.18)

116 (0.18)

rs10636

56, 643, 343

MT2A

G/G

228 (0.57)

358 (0.57)

0.66

G

598 (0.74)

946 (0.75)

0.67

C/G

142 (0.35)

230 (0.37)

C

206 (0.26)

312 (0.25)

C/C

32 (0.08)

41 (0.07)

rs2070836

56, 660, 120

MT1E

G/G

346 (0.85)

530 (0.84)

0.56

G

746 (0.92)

1156 (0.92)

0.69

C/G

54 (0.13)

96 (0.15)

C

64 (0.08)

106 (0.08)

C/C

5 (0.01)

5 (0.01)

rs708274

56, 660, 906

MT1E

G/G

310 (0.78)

482 (0.77)

0.22

G

701 (0.88)

1100 (0.88)

0.80

G/T

81 (0.20)

136 (0.22)

T

95 (0.12)

144 (0.12)

T/T

7 (0.02)

4 (0.01)

rs2270836

56, 667, 614

MT1M

C/C

169 (0.42)

231 (0.37)

0.19

C

516 (0.64)

764 (0.61)

0.083

C/T

178 (0.44)

302 (0.48)

T

286 (0.36)

498 (0.39)

T/T

54 (0.13)

98 (0.16)

rs9936741

56, 667, 785

MT1M

T/T

387 (0.96)

610 (0.95)

0.94*

T

792 (0.98)

1249 (0.98)

0.94

C/T

18 (0.04)

29 (0.05)

C

18 (0.02)

29 (0.02)

C/C

0 (0.00)

0 (0.00)

rs7190725

56, 673, 290

MT1A

G/G

308 (0.76)

483 (0.76)

0.99

G

706 (0.87)

1109 (0.87)

0.94

G/T

90 (0.22)

143 (0.22)

T

104 (0.13)

165 (0.13)

T/T

7 (0.02)

11 (0.02)

rs964372

56, 686, 030

MT1B

G/G

317 (0.78)

514 (0.81)

0.65

G

714 (0.88)

1142 (0.89)

0.34

C/G

80 (0.20)

114 (0.18)

C

96 (0.12)

134 (0.11)

C/C

8 (0.02)

10 (0.02)

rs2070839

56, 686, 242

MT1B

C/C

152 (0.38)

256 (0.40)

0.17

C

503 (0.63)

792 (0.62)

0.89

C/T

199 (0.50)

280 (0.44)

T

301 (0.37)

480 (0.38)

T/T

51 (0.13)

100 (0.16)

rs2291956

56, 692, 218

MT1F

C/C

308 (0.76)

481 (0.76)

0.97

C

705(0.87)

1104 (0.87)

0.97

C/T

89 (0.22)

142 (0.22)

T

103 (0.13)

162 (0.13)

T/T

7 (0.02)

10 (0.02)

rs2298847

56, 701, 294

MT1G

T/T

310 (0.77)

495 (0.79)

0.28

T

709 (0.88)

1107 (0.89)

0.58

A/T

89 (0.22)

117 (0.19)

A

99 (0.12)

143 (0.11)

A/A

5 (0.01)

13 (0.02)

rs4784708

56, 703, 914

MT1H

G/G

376 (0.94)

565 (0.89)

0.0197*

G

778 (0.97)

1196 (0.94)

0.016

C/G

26 (0.06)

66 (0.10)

C

26 (0.03)

70 (0.06)

C/C

0 (0.00)

2 (0.00)

rs2062545

56, 704, 125

MT1H

A/A

364 (0.90)

580 (0.91)

0.43*

A

768 (0.95)

1214 (0.96)

0.42

A/G

40 (0.10)

54 (0.09)

G

42 (0.05)

56 (0.04)

G/G

1 (0.00)

1 (0.00)

rs2062546

56, 704, 217

MT1H

T/T

353 (0.87)

566 (0.89)

0.35*

T

757 (0.94)

1200 (0.95)

0.36

A/T

51 (0.13)

68 (0.11)

A

51 (0.06)

68 (0.05)

A/A

0 (0.00)

0 (0.00)

rs2301234

56, 716, 982

MT1X

G/G

173 (0.43)

248 (0.39)

0.41

G

517 (0.64)

791 (0.62)

0.35

G/T

171 (0.43)

395 (0.46)

T

287 (0.36)

479 (0.38)

T/T

58 (0.14)

92 (0.14)


*p value calculated from comparing rare homozygote + heterozygote group against common homozygote group

Morgan et al. Journal of Negative Results in BioMedicine 2012 11:8   doi:10.1186/1477-5751-11-8

Open Data