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Table 5 Prostate Cancer SNP Associations Common to Both CGEMS Top 500 Ranked SNPs and FHS 100K SNPs

From: A genome-wide association study of breast and prostate cancer in the NHLBI's Framingham Heart Study

CGEMS Phase 1a

FHS 100K

DBSNP_ID

Chr

Physical Position

CGEMS p-value

CGEMS Rank

100K SNP

Physical Position

GEE p-value

FBAT p-value

MAF

Nearest Gene

Minor Allele Frequency ≥10%

rs3017183

18

51,319,241

0.00024100

85

rs3794889

51,212,935

0.017

0.799

0.224

TCF4

rs3017183

18

51,319,241

0.00024100

85

rs4801149

51,214,227

0.044

0.983

0.221

TCF4

rs2253319

21

35,109,916

0.00041100

137

rs2834645

35,109,556

0.009

0.293

0.206

RUNX1

rs392715

16

24,023,323

0.00041800

141

rs10492797

24,122,453

0.036

0.407

0.175

PRKCB1

rs10256504

7

3,516,796

0.00092200

295

rs4418248

3,194,181

1.8 × 10-4

0.056

0.109

SDK1

rs6102912

20

40,636,349

0.00111000

350

rs986831

40,594,892

0.009

0.094

0.407

PTPRT

rs4782742

16

81,573,151

0.00127400

395

rs254315

82,313,913

7.1 × 10-4

0.011

0.141

CDH13

rs2371438

2

212,791,037

0.00128500

401

rs10497958

212,771,465

0.055

0.047

0.164

ERBB4

rs6577648

8

135,555,688

0.00144900

445

rs10505624

135,607,862

4.9 × 10-4

0.007

0.147

ZFAT1

rs9327886

5

102,931,646

0.00154600

468

rs10515347

102,950,833

0.006

0.062

0.354

NUDT12

rs6555491

5

7,799,792

0.00158700

478

rs10512920

7,455,561

0.009

0.647

0.244

ADCY2

Minor Allele Frequency <10%

rs38276

7

14,078,240

0.00055700

181

rs10486031

14,258,703

1.7 × 10-5

0.759

0.032

DGKB

rs216666

2

80,745,015

0.00057000

184

rs10520247

79,693,452

2.8 × 10-5

0.240

0.065

CTNNA2

rs216666

2

80,745,015

0.00057000

184

rs10520246

79,693,324

1.5 × 10-4

0.198

0.050

CTNNA2

rs1261256

5

22,490,853

0.00060200

193

rs10520880

22,634,003

8.5 × 10-5

0.356

0.065

CDH12

rs7610584

3

171,635,885

0.00061900

196

rs10513681

171,624,010

7.8 × 10-7

0.402

0.025

CLDN11

rs7329659

13

97,872,564

0.00064700

209

rs7989050

97,680,299

6.0 × 10-6

0.258

0.014

FARP1

rs208354

7

2,554,104

0.00065000

211

rs10487577

2,583,719

2.0 × 10-7

N/A

0.012

GNA12

rs3751832

16

77,771,773

0.00079900

257

rs10514443

77,353,386

9.3 × 10-4

N/A

0.008

WWOX

  1. CGEMS = Cancer Genetics Markers of Susceptibility; MAF = minor allele frequency; N/A= not available, less than 10 informative families for FBAT
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BMC Medical Genetics

ISSN: 1471-2350

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