Humancnv370 quad v3.0 beadchips

Manufactured by Illumina

The HumanCNV370-Quad v3.0 BeadChips is a high-throughput microarray designed for the detection and analysis of copy number variations (CNVs) in the human genome. The BeadChips contain probes that cover over 370,000 CNV markers across the genome, enabling researchers to perform comprehensive CNV analysis in a single experiment.

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Beadstation 500gx, by Illumina (1 mentions)

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BeadChips (68 citations) HumanCNV370 (6 citations) HumanCNV370-Quad BeadChip (2 citations)

2 protocols using humancnv370 quad v3.0 beadchips

Genome-wide SNP Genotyping in Lymphoblastoid Cells

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Genomic DNA was prepared from immortalised lymphoblastoid cell lines by commercial DNA extraction kits (Gentra Systems, Inc, Minneapolis, Minnesota, USA). Genome-wide association study (GWAS) SNPs were genotyped using Illumina HumanCNV370-Quad v3.0 BeadChips on the Illumina BeadStation 500GX platform. The choice of the CNV370 BeadChips was dictated by cost at the time (2008), as the chips met our need of genotyping at the genome-wide level in a cost-effective way. Overall, 277 133 SNPs with minor allele frequency (MAF) ≥0.10 passed all quality control (QC) measures and were tested in the GWAS analysis. More details of the geno-typing procedures and QC measures can be found in the online only supplementary material.

Sarzynski M.A., Davidsen P.K., Sung Y.J., Hesselink M.K., Schrauwen P., Rice T.K., Rao D.C., Falciani F, & Bouchard C. (2015). Genomic and transcriptomic predictors of triglyceride response to regular exercise. British journal of sports medicine, 49(23), 1524-1531.

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Genome-Wide SNP Genotyping and QC

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Single nucleotide polymorphism (SNP) genotyping (~ 325,000 SNPs, Illumina Human CNV370-Quad v3.0 BeadChips) on genomic DNA from lymphoblastoid cells was performed and subjected to extensive quality control as previously described¹³. SNPs excluded from association analyses were filtered according to the following criteria: (a) minor allele frequency < 5%, (b) violated Hardy–Weinberg equilibrium (p < 1 × 10⁻⁶), and (c) missing values in > 10% of individuals. SNPs are based on dbSNP build 151 with genomic coordinates for GRCh38 (hg38) assembly. To estimate linkage disequilibrium (LD), r² correlation values between SNPs were calculated using default parameters in PLINK v1.9 (www.cog-genomics.org/plink/1.9/).

Takeshita L.Y., Davidsen P.K., Herbert J.M., Antczak P., Hesselink M.K., Schrauwen P., Weisnagel S.J., Robbins J.M., Gerszten R.E., Ghosh S., Sarzynski M.A., Bouchard C, & Falciani F. (2021). Genomics and transcriptomics landscapes associated to changes in insulin sensitivity in response to endurance exercise training. Scientific Reports, 11, 23314.

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