Application of quantum dots to multicolor microarray experiments four-color genotyping

George Karlin-Neumann, Marina Sedova, Mat Falkowski, Zhiyong Wang, Steven Lin, Maneesh Jain

Research output: Chapter in Book/Report/Conference proceedingChapter

18 Scopus citations


Highly multiplexed genomics assays are challenged by the need for a sufficient signal-to-noise ratio for each marker scored on a microarray-detection platform. Typically, as the number of markers scored (or target complexity) increases, either more assay-target material must be applied to the array or the specific activity of each marker must be proportionately increased. However, hybridization of excessive amounts of target to the microarray can result in elevated nonspecific binding and consequent degradation of information. We have found that quantum dots provide a successful alternative to organic dyes for achieving highly multiplexed (>20,000-plex) and highly accurate, four-color genotyping and have the additional advantage of being excitable by a single wavelength of light despite their distinct emission wavelengths.

Original languageEnglish (US)
Title of host publicationQuantum Dots
Subtitle of host publicationApplications in Biology
EditorsMarcel P. Bruchez, Charles Z. Hotz
Number of pages13
StatePublished - Feb 2 2007

Publication series

NameMethods in Molecular Biology
ISSN (Print)1064-3745


  • Barcodes
  • Genotyping
  • MIP
  • Microarray
  • Molecular inversion probes
  • Multicolor
  • Multiplex
  • Padlocks
  • Quantum dot
  • SNP
  • Single-nucleotide polymorphism
  • Tag arrays
  • Targeted
  • Unamplified genomic DNA

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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  • Cite this

    Karlin-Neumann, G., Sedova, M., Falkowski, M., Wang, Z., Lin, S., & Jain, M. (2007). Application of quantum dots to multicolor microarray experiments four-color genotyping. In M. P. Bruchez, & C. Z. Hotz (Eds.), Quantum Dots: Applications in Biology (pp. 239-251). (Methods in Molecular Biology; Vol. 374).