Table 2 Top SNPs identified by traditional GWAS of platelet reactivity response in 511 Caribbean Hispanics on clopidogrel

From: Discovery of ancestry-specific variants associated with clopidogrel response among Caribbean Hispanics

Linear regression model GWAS

 

SNPa

Chr

Position

Allele1

Allele2

MAF

Beta

SE

95% CIs

p-value

Gene

p-value/rep

rs1376606

3

32010168

G

C

0.13

−31.38

6.27

−43.66, −19.09

7.75E-07

OSBPL10

0.68

rs5030613

22

23834100

A

G

0.11

−33.53

6.75

−46.76, −20.30

9.42E-07

DERL3

NA

rs9323567

14

72268639

T

C

0.19

−26.71

5.39

−37.27, −16.15

9.85E-07

RGS6

0.41

rs4244285

10

94781859

A

G

0.13

23.94

6.15

11.89, 35.99

0.0001125

CYP2C19

1.67E-33

Logistic regression model GWAS

 

SNPa

Chr

Position

Allele1

Allele2

MAF

OR

SE

95% CIs

p-value

Gene

p-value/rep

rs116022080

4

95424813

A

G

0.07

3.69

0.27

2.19, 6.21

9.02E-07

UNC5C

NA

rs4244285

10

94781859

A

G

0.13

2.47

0.21

1.64, 3.73

1.50E-05

CYP2C19

1.67E-33

  1. Analyses performed in PLINK using both linear and logistic regression and adjusted by age, sex, diabetes, BMI, and PCs. The p-value/rep column shows significance of replication in the ICPC cohort (European). Chr: chromosome, Position: physical position (base-pair) denoted by using the human genome assembly/reference GRCh37.p13 (hg19) coordinate system, Allele1: minor (tested) allele based on whole sample, Allele2: major allele, SE: standard error, OR: estimated odds ratio for minor allele. 95%CI: Lower and upper bounds of 95% confidence interval for odds ratio. Asymptotic p-value for the association test. Additive effects of allele dosage (genetic model). NA stands for not available.
  2. aThe rs numbers are the accession numbers in the National Center for Biotechnology Information (NCBI) SNP database, dbSNP.
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