Candidate genes for non-diabetic ESRD in African Americans: a genome-wide association study using pooled DNA

被引：25

作者：

Bostrom, Meredith A. ^{[2
,4
,5
]}

Lu, Lingyi ^{[3
]}

Chou, Jeff ^{[3
]}

Hicks, Pamela J. ^{[2
]}

Xu, Jianzhao ^{[5
]}

Langefeld, Carl D. ^{[3
]}

Bowden, Donald W. ^{[2
,4
,5
]}

Freedman, Barry I. ^{[1
]}

机构：

[1] Wake Forest Univ, Bowman Gray Sch Med, Dept Internal Med Nephrol, Nephrol Sect, Winston Salem, NC 27157 USA

[2] Wake Forest Univ, Bowman Gray Sch Med, Dept Biochem, Winston Salem, NC 27157 USA

[3] Wake Forest Univ, Bowman Gray Sch Med, Dept Biostat Sci, Winston Salem, NC 27157 USA

[4] Wake Forest Univ, Bowman Gray Sch Med, Ctr Human Genom, Winston Salem, NC 27157 USA

[5] Wake Forest Univ, Bowman Gray Sch Med, Ctr Diabet Res, Winston Salem, NC 27157 USA

来源：

HUMAN GENETICS | 2010年 / 128卷 / 02期

关键词：

STAGE RENAL-DISEASE; MYH9; KIDNEY; SCAN; IDENTIFICATION; POLYMORPHISMS;

D O I：

10.1007/s00439-010-0842-3

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

African Americans have increased susceptibility to non-diabetic (non-DM) forms of end-stage renal disease (ESRD) and extensive evidence supports a genetic contribution. A genome-wide association study (GWAS) using pooled DNA was performed in 1,000 African Americans to detect associated genes. DNA from 500 non-DM ESRD cases and 500 non-nephropathy controls was quantified using gel electrophoresis and spectrophotometric analysis and pools of 50 case and 50 control DNA samples were created. DNA pools were genotyped in duplicate on the Illumina HumanHap550-Duo BeadChip. Normalization methods were developed and applied to array intensity values to reduce inter-array variance. Allele frequencies were calculated from normalized channel intensities and compared between case and control pools. Three SNPs had p values of < 1.0E-6: rs4462445 (ch 13), rs4821469 (ch 22) and rs8077346 (ch 17). After normalization, top scoring SNPs (n = 65) were genotyped individually in 464 of the original cases and 478 of the controls, with replication in 336 non-DM ESRD cases and 363 non-nephropathy controls. Sixteen SNPs were associated with non-DM ESRD (p < 7.7E-4, Bonferroni corrected). Twelve of these SNPs are in or near the MYH9 gene. The four non-MYH9 SNPs that were associated with non-DM ESRD in the pooled samples were not associated in the replication set. Five SNPs that were modestly associated in the pooled samples were more strongly associated in the replication and/or combined samples. This is the first GWAS for non-DM ESRD in African Americans using pooled DNA. We demonstrate strong association between non-DM ESRD in African Americans with MYH9, and have identified additional candidate loci.

引用

页码：195 / 204

页数：10

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