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Multiplexed Quantitative In Situ Hybridization for Mammalian or Bacterial Cells in Suspension: qHCR Flow Cytometry (v3.0)

Schwarzkopf, Maayan and Choi, Harry M. T. and Pierce, Niles A. (2020) Multiplexed Quantitative In Situ Hybridization for Mammalian or Bacterial Cells in Suspension: qHCR Flow Cytometry (v3.0). In: In Situ Hybridization Protocols. Methods in Molecular Biology. No.2148. Humana Press , New York, NY, pp. 127-141. ISBN 978-1-0716-0622-3. https://resolver.caltech.edu/CaltechAUTHORS:20200518-144322691

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Abstract

In situ hybridization based on the mechanism of hybridization chain reaction (HCR) enables high-throughput expression profiling of mammalian or bacterial cells via flow cytometry. Third-generation in situ HCR (v3.0) provides automatic background suppression throughout the protocol, dramatically enhancing performance and ease of use. In situ HCR v3.0 supports analog mRNA relative quantitation via qHCR flow cytometry. Here, we provide protocols for multiplexed qHCR flow cytometry for mammalian or bacterial cells in suspension.


Item Type:Book Section
Related URLs:
URLURL TypeDescription
https://doi.org/10.1007/978-1-0716-0623-0_8DOIArticle
ORCID:
AuthorORCID
Choi, Harry M. T.0000-0002-1530-0773
Pierce, Niles A.0000-0003-2367-4406
Additional Information:© 2020 Springer Science+Business Media, LLC, part of Springer Nature. First Online: 12 May 2020. We thank A. Acharya and G. Artavanis for performing preliminary studies. Within the Beckman Institute at Caltech, we thank the following for assistance: C.R. Calvert and G.J. Shin (Molecular Technologies), R. Diamond, and D. Perez (Flow Cytometry Facility). This work was funded by the National Institutes of Health (National Institute of Biomedical Imaging and Bioengineering R01EB006192), by the Defense Advanced Research Projects Agency (HR0011-17-2-0008; the findings are those of the authors and should not be interpreted as representing the official views or policies of the US Government), by the Beckman Institute at Caltech (Programmable Molecular Technology Center, PMTC), by the Gordon and Betty Moore Foundation (GBMF2809), by the National Science Foundation Molecular Programming Project (NSF-CCF-1317694), by a Professorial Fellowship at Balliol College, University of Oxford, and by the Eastman Visiting Professorship at the University of Oxford. Competing Interests: The authors declare competing financial interests in the form of patents, pending patent applications, and a startup company (Molecular Instruments).
Funders:
Funding AgencyGrant Number
NIHR01EB006192
Defense Advanced Research Projects Agency (DARPA)HR0011-17-2-0008
Caltech Beckman InstituteUNSPECIFIED
Gordon and Betty Moore FoundationGBMF2809
NSFCCF-1317694
University of OxfordUNSPECIFIED
Subject Keywords:Accuracy; Autofluorescence; Automatic background suppression; Bacterial cells; Fluorescence in situ hybridization (FISH); High-throughput expression profiling; Hybridization chain reaction (HCR); In situ HCR v3.0; Mammalian cells; mRNA flow cytometry; Multiplexed; Precision; qHCR flow cytometry; Quantitative; Signal amplification
Series Name:Methods in Molecular Biology
Issue or Number:2148
Record Number:CaltechAUTHORS:20200518-144322691
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20200518-144322691
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:103288
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:18 May 2020 21:51
Last Modified:18 May 2020 21:51

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