SNP genotyping / methylation arrays

Overview:

SNP Genotyping Arrays provide a high-throughput and cost-effective method for detecting single nucleotide polymorphisms (SNPs) across the genome. Hybridization-based or bead-array platforms (e.g., Illumina Infinium, Affymetrix Axiom) are typically used, with predefined panels covering hundreds of thousands to millions of SNPs. Applicable to genomic DNA extracted from blood, cells, tissues, or other sources, with DNA quality and concentration influencing assay performance. Enables accurate genotyping for common and rare variants, allele frequency estimation, genome-wide association studies (GWAS), pharmacogenomics, population genetics, and linkage analyses. While SNP arrays do not capture novel or structural variants, they offer a reproducible and scalable approach for large cohorts, ancestry determination, and polygenic risk scoring.

DNA Methylation Arrays provide a genome-wide assessment of DNA methylation patterns at single-CpG resolution. Platforms such as the Illumina Infinium MethylationEPIC or 450K BeadChip allow simultaneous interrogation of hundreds of thousands of CpG sites across promoters, enhancers, and gene bodies. Applicable to bisulfite-converted genomic DNA from blood, tissues, or cultured cells, with high-quality DNA improving reproducibility and coverage. Enables the study of epigenetic regulation, age-related methylation changes, disease-specific epigenetic alterations, cancer biomarker discovery, and environmental or lifestyle impacts on the epigenome. While arrays target a predefined set of CpGs, they provide robust,

Workflow:

DNA extraction, array hybridization, fluorescence scanning, automated data acquisition.