The tagged microarray marker (TAM) method for high-throughput detection of single nucleotide and indel polymorphisms

Runchun Jing, Viacheslav Bolshakov, Andrew J. Flavell

    Research output: Contribution to journalArticle

    22 Citations (Scopus)

    Abstract

    The tagged microarray marker (TAM) method allows high-throughput differentiation between predicted alternative PCR products. Typically, the method is used as a molecular marker approach to determining the allelic states of single nucleotide polymorphisms (SNPs) or insertion-deletion (indel) alleles at genomic loci in multiple individuals. Biotin-labeled PCR products are spotted, unpurified, onto a streptavidin-coated glass slide and the alternative products are differentiated by hybridization to fluorescent detector oligonucleotides that recognize corresponding allele-specific tags on the PCR primers. The main attractions of this method are its high throughput (thousands of PCRs are analyzed per slide), flexibility of scoring (any combination, from a single marker in thousands of samples to thousands of markers in a single sample, can be analyzed) and flexibility of scale (any experimental scale, from a small lab setting up to a large project). This protocol describes an experiment involving 3,072 PCRs scored on a slide. The whole process from the start of PCR setup to receiving the data spreadsheet takes 2 d.

    Original languageEnglish
    Pages (from-to)168-177
    Number of pages10
    JournalNature Protocols
    Volume2
    Issue number1
    DOIs
    Publication statusPublished - 2007

    Keywords

    • SYSTEM
    • DNA
    • MUTATION
    • GENES
    • MODEL
    • PCR

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