High throughput methods for SNP detection

The ideal SNP detection method should be simple, accurate, inexpensive, and suitable for potential automation to allow genome-wide screening for known and unknown SNPs. Array-based technology is the only approach that, at least in theory, could fulfill most of these requirements. Array technology applied to the detection of SNPs has confirmed most of the common polymorphisms previously identified by conventional techniques and has identified a large number of new SNPs (20).

Array-based allelic discrimination methods can be categorized according to four principles: allele-specific hybridization, allele-specific primer extension, allele-specific oligonucleotide ligation and allele-specific invasive cleavage (21). These methods utilize known SNP position and their flanking sequence information for the design of allele-specific probes.

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