DNA was extracted using the whole blood sample collected and subjected to genotyping using Illumina Human610-Quad BeadChip (Illumina, San Diego, CA, USA) and Illumina Human660W-Quad BeadChip (Illumina, San Diego, CA, USA), as described by Hager et al 2012.27 (link) Among the study population, 1394 patients from Stenosis Group, and 705 patients from Stenosis Group had genotyped data available and were included in the genetic association using PLINK.28 (link) Using PLINK, quality control (QC) was applied, and variants were filtered out. Sex checks were performed using PLINK and variants were excluded for having >5% missing genotyping rates and <1% MAF (minor allele frequency), and for failing HWE (Hardy-Weinberg Equilibrium) test (P > 0.05).
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Illumina Genotyping of Stenosis Cohort
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Corresponding Organization :
Other organizations : Khalifa University of Science and Technology, McGill University and Génome Québec Innovation Centre, Université Paris Cité, Inserm, Sheikh Shakhbout Medical City, Lebanese University, Harvard University
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Variable analysis
independent variables
- Genotyping using Illumina Human610-Quad BeadChip
- Genotyping using Illumina Human660W-Quad BeadChip
- Genetic association
- Sex checks
- Variants excluded for having >5% missing genotyping rates
- Variants excluded for having <1% minor allele frequency (MAF)
- Variants excluded for failing Hardy-Weinberg Equilibrium (HWE) test (P > 0.05)
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