High-Throughput Single-Cell Real-Time Quantitative PCR Analysis

  • Liora Haim-Vilmovsky
Part of the Methods in Molecular Biology book series (MIMB, volume 1979)


Examining transcriptomics of populations at the single-cell level allows for higher resolution when studying functionality in development, differentiation, and physiology. Real-time quantitative PCR (qPCR) enables a sensitive detection of specific gene expression; however, processing a large number of samples for single-cell research involves a time-consuming process and high reagent costs. Here we describe a protocol for single-cell qPCR using nanofluidic chips. This method reduces the number of handling steps and volumes per reaction, allowing for more samples and genes to be measured.

Key words

Quantitative real-time PCR Single cells Targeted assays Gene expression Transcripts 



This work was supported by EMBO (award number ALTF 698-2012), Directorate-General for Research and Innovation (FP7-PEOPLE-2010-IEF, ThPLAST 274192) and an EMBL Interdisciplinary Postdoctoral fellowship, supported by H2020 Marie Skłodowska-Curie Actions.


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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Liora Haim-Vilmovsky
    • 1
    • 2
  1. 1.EMBL-European Bioinformatics InstituteWellcome Trust Genome CampusCambridgeUK
  2. 2.Wellcome Sanger InstituteWellcome Genome CampusCambridgeUK

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