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Table 9 Results for 7 SCARB1 lipid-associated variants in US Non-Hispanic Whites (previous studya) and in African Blacks (this study)

From: Genetic contribution of SCARB1 variants to lipid traits in African Blacks: a candidate gene association study

SNP Nameb

SNP IDc

Chr12 Positiond

Location

RegDB Scoree

Alleles

US Non-Hispanic Whitesa (n = 623)

African Blacks (n = 788)

MA, MAF

β

P

MA, MAF

β

P

Other Assoc Trait(s)f

(SE)

(SE)

HDL-C

            

 p28957

rs11057844

125320563

Intron 1

5

G/A

A, 0.1839

−0.0395

0.0035

A, 0.2362

0.3671

0.1075

 
       

(0.0135)

  

(0.2278)

  

 p83884

rs701106

125265636

Intron 12

5

C/T

T, 0.1527

0.0394

0.0066

T, 0.2597

0.2471

0.2601

ApoA-I

       

(0.0144)

  

(0.2192)

  

 p87927

rs838880

125261593

3′ flanking

5

G/A

G, 0.3237

0.0257

0.0250

A, 0.2414

0.0198

0.9314

 
       

(0.0114)

  

(0.2302)

  

ApoB

            

 p48969

rs2343394

125300551

Intron 2

5

C/T

T, 0.2850

1.2544

0.0082

T, 0.1898

0.0383

0.9544

 
       

(0.4721)

  

(0.6696)

  

 p49690

rs4765615

125299830

Intron 2

5

G/A

G, 0.4497

1.2493

0.0059

A, 0.4426

0.7771

0.1338

HDL-C, ApoA-I

       

(0.4518)

  

(0.5178)

  

 p50151

rs2278986

125299369

Intron 3

5

T/C

C, 0.2890

1.1926

0.0122

C, 0.1933

0.1308

0.8434

 
       

(0.4735)

  

(0.6619)

  

 p52556

rs11057820

125296964

Intron 4

5

G/A

G, 0.4871

0.8700

0.0436

A, 0.1000

1.8661

0.0292

 
       

(0.4300)

  

(0.8542)

  
  1. ApoB apolipoprotein B, HDL-C high-density lipoprotein cholesterol, MA minor allele, MAF minor allele frequency, RegDB RegulomeDB, SE standard error, SNP single nucleotide polymorphism
  2. All alleles on the reverse strand
  3. HDL-C and ApoB values for US Non-Hispanic Whites were in mg/dL, Box-Cox transformed, and adjusted for covariates: sex, age, body mass index, and smoking (past/current/never) for HDL-C; age and smoking for ApoB
  4. HDL-C and ApoB values for African Blacks were in mg/dL, Box-Cox transformed, and adjusted for covariates: sex, age, waist, current smoking (yes/no), and daily walking or biking to work (jobmin) for HDL-C; body mass index and staff status for ApoB
  5. Nominally significant P-values (P < 0.05) are shown in bold
  6. aData from Niemsiri V, et al. Circ Cardiovasc Genet 2014, 7(6):838–847 (Ref [49])
  7. b, dRefSeq of SCARB1: hg19, NM_005505 (CHIP Bioinformatics)
  8. cdbSNP version 139: GRCh37.p10
  9. eThe RegulomeDB (version 1.0) scoring scheme is described at the footnote of Additional file 17: Table S12 or at http://regulome.stanford.edu/help
  10. fEvidence is based on SNPs with MAF ≥5 % exhibiting nominally significant association with either HDL-C or ApoA-I (P < 0.05; Additional file 14: Table S9 and Additional file 15: Table S10) in single-site association results in the current study
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BMC Medical Genetics

ISSN: 1471-2350

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