The Introduction to SNP Microarray

CD genomics can help you analyze genetic variation efficiently to meet diverse research needs. By utilizing Affymetrix and Illumina array platforms, we support high-throughput, multiplex processing to meet diverse research needs., delivering high-quality data at a low per-sample cost.

The Introduction to SNP Microarray

Powered by state-of-the-art variant detection and SNP genotyping technologies, CD genomics provides the various of genotyping services, delivering high-quality data at a low per-sample cost. Microarrays are a valuable tool to enable researchers to explore genetic variants such as single nucleotide polymorphisms (SNPs) and large structural changes, from discovery applications to routine screening.

Affymetrix and Illumina genotyping microarrays both provide trusted performance with respect to precision medicine initiatives, clinical and translational research, pharmacology, consumer screening, and agricultural applications. Based on the species and the selection of SNPs, multiple genotyping strategies are available.

Table 1. Our available automated SNP genotyping platforms.

Figure 1. Our workflow of HLA typing.

Service Specifications

	Platform	Applications
	GeneTitan instrument together with Axiom array plates	The model organism studies Agricultural genotyping CarrierScan Assay Mouse Diversity Genotyping
	GeneChip Scanner 3000 7G System together with Affymetrix GeneChip	Precision Medicine Research The detection of all known microorganisms ADME
	Illumina iScan system together with Illumina BeadChips	GWAS exonic content studies population-scale studies CNV and LOH Agricultural genotyping

Advantages of SNP Microarray

• Custom, flexible, and scalable
• High call rates > 99%, and high accuracy
• Cost-effective and high-throughput
• Identifies SNPs in targeted or whole genome scale
• In addition to SNPs, other genetic differences, such as copy number variations, can be measured
• Applications in biomarker discovery and validation, clinical testing, GWAS, pharmacogenomics, forensics, and breed discrimination

SNP Microarray Workflow

The general workflow for SNP Microarray is outlined below. We have three well-recognized genotyping platforms (Table 1) for genome-wide or targeted identification of SNPs and copy number variations in a high-throughput and affordable manner. Our highly experienced expert team executes quality management, following every procedure to ensure confident and unbiased results.

Service Specifications

	Sample Requirements Sample source: humans, plants, or animals High-quality genomic DNA with minimal fragmentation DNA amount ≥ 100 ng (DNA concentration ≥ 100 ng/µl) Sample purity: OD260/280 = 1.8~2.0 All DNA samples are validated for purity and quantity
	SNP Genotyping A wide range of arrays are available for humans, plants, and animals, or Custom genotyping arrays panels can be created to fully meet your specific needs GeneTitan instrument GeneChip Scanner Illumina iScan Accuracy and reliability for the assays are usually above 99.5%
	Bioinformatics Analysis We provide customized bioinformatics analysis including: SNP identification GWAS Linkage map construction Genomic selection Population structure analysis

Our Full Service covers the complete process, from quality control of genomic DNA to thedetermination of genotypes. Besides, CD Genomics can also help create your own custom microarray which can be tailored to meet specific project requirements. If you have additional requirements or questions, please feel free to contact us.

FAQs

1.The introduction of Illumina and Affymetrix genotyping platforms.

Table 1. Affymetrix and Illumina genotyping solutions.

2.How to choose the most suitable genotyping platform for my specific needs?

The choice of genotyping strategies depends on the species, the purpose, the number of SNPs per sample, and the number of samples. For different cases, we recommend different genotyping technologies.

1. 1. For genome-wide SNP genotyping, we recommend Illumina BeadChips, Affymetrix GeneChips or NGS.
   2. For gene-wide SNP genotyping, such as fine mapping or haplotyping of candidate regions we recommend NGS or array-based technologies.
   3. For the analysis of individual SNPs, we recommend Real-time PCR assays, Sanger Sequencing, Illumina BeadChips, Affymetrix technology, or NGS.

3.What arrays are available at CD Genomics?

At CD Genomics, we have both ready-made and custom arrays for your SNP genotyping projects.
Table 2. Our available arrays for SNP genotyping.