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Highly Efficient and Reliable DNA Aptamer Selection Using the Partitioning Capabilities of ddPCR: The Hi-Fi SELEX Method

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Digital PCR

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1768))

Abstract

In addition to its growing use in detecting and quantifying genes and larger genomic events, the partitioning used in digital PCR can serve as a powerful tool for high-fidelity amplification of synthetic combinatorial libraries of single-stranded DNA. Sequence-diverse libraries of this type are used as a basis for selecting tight-binding aptamers against a specific target. Here we provide a detailed description of the Hi-Fi SELEX protocol for rapid and efficient DNA aptamer selection. As part of that methodology, we describe how Hi-Fi SELEX gains advantages over other aptamer selection methods in part through the use of the massive partitioning capability of digital PCR.

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Author information

Authors and Affiliations

  1. Michael Smith Laboratories, Department of Chemical and Biological Engineering, University of British Columbia, Vancouver, BC, Canada

    Aaron Ang, Eric Ouellet & Charles Haynes

  2. Centre for Blood Research, University of British Columbia, Vancouver, BC, Canada

    Aaron Ang, Eric Ouellet & Karen C. Cheung

  3. Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, Canada

    Karen C. Cheung & Charles Haynes

Authors
  1. Aaron Ang
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  2. Eric Ouellet
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  3. Karen C. Cheung
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  4. Charles Haynes
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Corresponding author

Correspondence to Charles Haynes .

Editor information

Editors and Affiliations

  1. Digital Biology Center, Bio-Rad Laboratories, Pleasanton, California, USA

    George Karlin-Neumann

  2. Digital Biology Center, Bio-Rad Laboratories, Pleasanton, California, USA

    Francisco Bizouarn

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Ang, A., Ouellet, E., Cheung, K.C., Haynes, C. (2018). Highly Efficient and Reliable DNA Aptamer Selection Using the Partitioning Capabilities of ddPCR: The Hi-Fi SELEX Method. In: Karlin-Neumann, G., Bizouarn, F. (eds) Digital PCR. Methods in Molecular Biology, vol 1768. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7778-9_30

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  • DOI: https://doi.org/10.1007/978-1-4939-7778-9_30

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7776-5

  • Online ISBN: 978-1-4939-7778-9

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