Medium- to High-Throughput SNP Genotyping Using VeraCode Microbeads

  • Charles H. Lin
  • Joanne M. Yeakley
  • Timothy K. McDaniel
  • Richard Shen
Part of the METHODS IN MOLECULAR BIOLOGY™ book series (MIMB, volume 496)


Recent breakthroughs in multiplexed SNP (single nucleotide polymorphism) genotyping technology have enabled global mapping of the relationships between genetic variation and disease. Discoveries made by such whole-genome association studies often spur further interest in surveying more focused subsets of SNPs for validation or research purposes. Here we describe a new SNP genotyping platform that is flexible in assay content and multiplexing (up to 384 analytes), and can serve medium- to high-throughput applications. The Illumina BeadXpress platform supports the GoldenGate Genotyping Assay on digitally inscribed VeraCode microbeads to allow streamlined workflow, rapid detection, unparalleled data reproducibility and consistency. Thus, it is a highly valuable tool for biomarker research and validation, pharmaceutical development, as well as the development of molecular diagnostic tests.

Key Words

High-throughput genotyping biomarker validation SNP randomly assembled microarrays allele-specific extension and ligation universal capture oligonucleotides universal arrays 



We thank M. Chen, I. Lewis, and S. Oeser for their crucial contributions to the development of the VeraCode Golden Genotyping Assay. We also thank J. Stuelpnagel, M. Henshall, C. Allred and S. Valentini for critical reading of this chapter. Illumina, GoldenGate, BeadArray, BeadXpress, and VeraCode are registered trademarks or trademarks of Illumina, Inc. All other brands and names contained herein are the property of their respective owners.


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Copyright information

© Humana Press, a part of Springer Science+Business Media, LLC 2009

Authors and Affiliations

  • Charles H. Lin
    • 1
  • Joanne M. Yeakley
    • 1
  • Timothy K. McDaniel
    • 1
  • Richard Shen
    • 1
  1. 1.Illumina, Inc.San DiegoUSA

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