How does a SNP array work?
SNP array is a type of DNA microarray containing designed probes harboring the SNP positions, which is hybridized with fragmented DNA to determine the specific alleles of all SNPs on the array for the hybridized DNA sample (LaFramboise, 2009).
How does Illumina SNP array work?
How Do Illumina Microarrays Work? As DNA fragments pass over the BeadChip, each probe binds to a complementary sequence in the sample DNA, stopping one base before the locus of interest. Allele specificity is conferred by a single base extension that incorporates one of four labeled nucleotides.
What is SNP genotyping array?
In molecular biology, SNP array is a type of DNA microarray which is used to detect polymorphisms within a population. A single nucleotide polymorphism (SNP), a variation at a single site in DNA, is the most frequent type of variation in the genome.
How does microarray detect SNP?
The principle of microarray. SNP microarray uses known nucleotide sequences as probes to hybridize with the tested DNA sequences, allowing qualitative and quantitative SNP analysis through signal detection.
What is Affymetrix microarray?
The Affymetrix GeneChip system is a commercial microarray platform that allows whole genome gene expression analysis for a wide variety of experimental organisms (http://www.affymetrix.com/products/arrays/index.affx).
How do you analyze SNP array data?
How To Analyze Your Single Nucleotide Polymorphism (SNP) Chip Data
- Cluster your SNPs. First, sort the data by chromosome, and then by chromosome position, in order to cluster your SNPs.
- Choose which SNPs to pursue.
- Find your SNPS on the chromosome.
- Identify gene functions.
- Dig deeper.
What is an SNP microarray?
SNP microarray is the hybridization of fragmented single-stranded DNA to arrays containing hundreds of thousands of unique nucleotide probe sequences. Each probe is designed to bind to a target DNA subsequence.
Where is Affymetrix located?
Santa Clara, California
Affymetrix, Inc. Santa Clara, California, U.S.
How do you identify SNP?
Restriction fragment length polymorphism (RFLP) is considered to be the simplest and earliest method to detect SNPs. SNP-RFLP makes use of the many different restriction endonucleases and their high affinity to unique and specific restriction sites.
How is SNP analysis done?
PCR-based methods for SNP/mutation detection are broadly categorized into two types-(1) polymorphic or mutant allele-directed specific analysis using primers matched with substituted nucleotide or using oligonucleotides to block or clamp the nontargeted template, and (2) melting curve analysis, which is combined with …
What is Affymetrix array?
The Affymetrix GeneChip Tiling Array Sets contain probes that cover virtually every base pair of the genome and are designed for identifying novel transcripts, mapping sites of protein/DNA interaction in chromatin immunoprecipitation (ChIP) experiments, and other experiments.