Genome‐wide interaction study of single‐nucleotide polymorphisms and alcohol consumption on blood pressure: The Ansan and Ansung study of the Korean Genome and Epidemiology Study (KoGES)

2020 ◽  
Vol 44 (3) ◽  
pp. 300-310
Author(s):  
Youngjun Kim ◽  
Jihye Kim ◽  
Ji Eun Lim ◽  
Bermseok Oh ◽  
Sungho Won ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Alcohol Consumption ◽  
Single Nucleotide Polymorphisms ◽  
Nucleotide Polymorphisms ◽  
Epidemiology Study ◽  
Interaction Study ◽  
Single Nucleotide ◽  
Genome Wide

scholarly journals GW26-e0113 Interactions of several single nucleotide polymorphisms and alcohol consumption on blood pressure levels

2015 ◽  
Vol 66 (16) ◽  
pp. C197 ◽  
Author(s):  
Ruixing Yin ◽  
Lynn-Htet-Htet Aung ◽  
Xingjiang Long ◽  
Tingting Yan ◽  
Xiaoli Cao ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Alcohol Consumption ◽  
Single Nucleotide Polymorphisms ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

scholarly journals Genome-Wide Analysis of Blood Pressure Variability and Ischemic Stroke

Stroke ◽  
2013 ◽  
Vol 44 (10) ◽  
pp. 2703-2709 ◽  
Author(s):  
Sunaina Yadav ◽  
Ioana Cotlarciuc ◽  
Patricia B. Munroe ◽  
Muhammad S. Khan ◽  
Michael A. Nalls ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Ischemic Stroke ◽  
Single Nucleotide Polymorphisms ◽  
Odds Ratio ◽  
Small Vessel Disease ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Vessel Disease ◽  
Genome Wide ◽  
A Genome

Background and Purpose— Visit-to-visit variability in blood pressure (vBP) is associated with ischemic stroke. We sought to determine whether such variability has genetic causes and whether genetic variants associated with BP variability are also associated with ischemic stroke. Methods— A Genome Wide Association Study (GWAS) for loci influencing BP variability was undertaken in 3802 individuals from the Anglo-Scandinavian Cardiac Outcome Trial (ASCOT) study, in which long-term visit-to-visit and within-visit BP measures were available. Because BP variability is strongly associated with ischemic stroke, we genotyped the sentinel single nucleotide polymorphism in an independent ischemic stroke population comprising 8624 cases and 12 722 controls and in 3900 additional (Scandinavian) participants from the ASCOT study to replicate our findings. Results— The ASCOT discovery GWAS identified a cluster of 17 correlated single nucleotide polymorphisms within the NLGN1 gene (3q26.31) associated with BP variability. The strongest association was with rs976683 ( P =1.4×10 −8 ). Conditional analysis of rs976683 provided no evidence of additional independent associations at the locus. Analysis of rs976683 in patients with ischemic stroke found no association for overall stroke (odds ratio, 1.02; 95% CI, 0.97–1.07; P =0.52) or its subtypes: cardioembolic (odds ratio, 1.07; 95% CI, 0.97–1.16; P =0.17), large vessel disease (odds ratio, 0.98; 95% CI, 0.89–1.07; P =0.60), and small vessel disease (odds ratio, 1.07; 95% CI, 0.97–1.17; P =0.19). No evidence for association was found between rs976683 and BP variability in the additional (Scandinavian) ASCOT participants ( P =0.18). Conclusions— We identified a cluster of single nucleotide polymorphisms at the NLGN1 locus showing significant association with BP variability. Follow-up analyses did not support an association with risk of ischemic stroke and its subtypes.

Examination of the associations between m6A-associated single-nucleotide polymorphisms and blood pressure

2019 ◽  
Vol 42 (10) ◽  
pp. 1582-1589 ◽  
Author(s):  
Xing-Bo Mo ◽  
Shu-Feng Lei ◽  
Yong-Hong Zhang ◽  
Huan Zhang
Keyword(s):  
Blood Pressure ◽  
Single Nucleotide Polymorphisms ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

scholarly journals Identification of genome-wide single-nucleotide polymorphisms among geographically diverse radish accessions

DNA Research ◽  
2020 ◽  
Vol 27 (1) ◽  
Author(s):  
Hiroto Kobayashi ◽  
Kenta Shirasawa ◽  
Nobuko Fukino ◽  
Hideki Hirakawa ◽  
Takashi Akanuma ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Southeast Asia ◽  
East Asia ◽  
Near East ◽  
Dna Polymorphisms ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
South And Southeast Asia ◽  
Snp Data ◽  
Genome Wide

Abstract Radish (Raphanus sativus L.) is cultivated around the world as a vegetable crop and exhibits diverse morphological and physiological features. DNA polymorphisms are responsible for differences in traits among cultivars. In this study, we determined genome-wide single-nucleotide polymorphisms (SNPs) among geographically diverse radish accessions using the double-digest restriction site-associated DNA sequencing (ddRAD-Seq) method. A total of 52,559 SNPs was identified in a collection of over 500 radish accessions (cultivated and wild) from East Asia, South and Southeast Asia, and the Occident and Near East. In addition, 2,624 SNP sites without missing data (referred to as common SNP sites) were identified among 510 accessions. Genetic diversity analyses, based on the common SNP sites, divided the cultivated radish accessions into four main groups, each derived from four geographical areas (Japan, East Asia, South and Southeast Asia, and the Occident and Near East). Furthermore, we discuss the origin of cultivated radish and its migration from the West to East Asia. SNP data generated in this work will facilitate further genetic studies on the radish breeding and production of DNA markers.

scholarly journals Progressive effects of single-nucleotide polymorphisms on 16 phenotypic traits based on longitudinal data

2020 ◽  
Vol 42 (4) ◽  
pp. 393-403
Author(s):  
Donghe Li ◽  
Hahn Kang ◽  
Sanghun Lee ◽  
Sungho Won
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Longitudinal Data ◽  
Density Lipoprotein ◽  
Phenotypic Traits ◽  
Chromosome 2 ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Longitudinal Changes ◽  
Genome Wide ◽  
A Genome

Abstract Background There are many research studies have estimated the heritability of phenotypic traits, but few have considered longitudinal changes in several phenotypic traits together. Objective To evaluate the progressive effect of single nucleotide polymorphisms (SNPs) on prominent health-related phenotypic traits by determining SNP-based heritability ($$h_{snp}^{2}$$hsnp2) using longitudinal data. Methods Sixteen phenotypic traits associated with major health indices were observed biennially for 6843 individuals with 10-year follow-up in a Korean community-based cohort. Average SNP heritability and longitudinal changes in the total period were estimated using a two-stage model. Average and periodic differences for each subject were considered responses to estimate SNP heritability. Furthermore, a genome-wide association study (GWAS) was performed for significant SNPs. Results Each SNP heritability for the phenotypic mean of all sixteen traits through 6 periods (baseline and five follow-ups) were significant. Gradually, the forced vital capacity in one second (FEV1) reflected the only significant SNP heritability among longitudinal changes at a false discovery rate (FDR)-adjusted 0.05 significance level ($$h_{snp}^{2} = 0.171$$hsnp2=0.171, FDR = 0.0012). On estimating chromosomal heritability, chromosome 2 displayed the highest heritability upon periodic changes in FEV1. SNPs including rs2272402 and rs7209788 displayed a genome-wide significant association with longitudinal changes in FEV1 (P = 1.22 × 10−8 for rs2272402 and P = 3.36 × 10−7 for rs7209788). De novo variants including rs4922117 (near LPL, P = 2.13 × 10−15) of log-transformed high-density lipoprotein (HDL) ratios and rs2335418 (near HMGCR, P = 3.2 $$\times$$× 10−9) of low-density lipoprotein were detected on GWAS. Conclusion Significant genetic effects on longitudinal changes in FEV1 among the middle-aged general population and chromosome 2 account for most of the genetic variance.

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