Table 1

WTCCC-data-validated SNPs and SNP pairs (epistases) associated with RA

Chr

SNP

Location

Gene Code

± kbpa

ORb

p-Valuec

Marg. Rankd


1

rs3811019

114183625

PTPN22

0

1.46

6.93 × 10-7

1150

6

rs1265777

32381136

C6orf10

0

1.01

9.84 × 10-1

436

6

rs574710

32396168

C6orf10

0

0.89

7.44 × 10-1

488

6

rs539703

32396440

C6orf10

0

1.05

9.34 × 10-1

440

6

rs2894249

32433813

C6orf10

0

0.79

3.76 × 10-4

245

6

rs2076533

32471505

BTNL2

0

2.03

2.00 × 10-16

630

6

rs3763308

32482618

BTNL2

0

0.42

1.91 × 10-8

959

6

rs9268645

32516505

HLA-DRA

0

0.85

2.90 × 10-2

278

6

rs7194

32520458

HLA-DRA

0

1.02

7.96 × 10-1

110

6

rs9273363

32734250

HLA-DQB1

5

0.73

4.14 × 10-9

709

6

rs6908943

32743274

HLA-DQB1

5

0.69

2.92 × 10-7

1131

8

SNP_A-4193342

97922693

PGCP

0

1.38

1.68 × 10-7

416671

22

rs16981203

24729414

MYO18B

0

1.3

1.08 × 10-5

501


a± kbp, location of the SNPs. "0" indicates the SNP is physically located within the corresponding gene; "5" indicates the SNP is located outside the gene but is less than 5 kbp away.

bOR, the joint odds ratios and p-values in the full model containing all of the selected variables.

cp-value, for the full model containing all of the selected variables.

dMarg. Rank, marginal ranks of the SNPs by single-marker analysis in the WTCCC data. The rank >1015 corresponds to the Bonferroni p-value > 0.1 in a single-marker study.

Wu et al. BMC Proceedings 2009 3(Suppl 7):S29  

Open Data