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A hydrogel beads based platform for single-cell phenotypic analysis and digital molecular detection

Zhu, Yanzhe and Li, Jing and Lin, Xingyu and Huang, Xiao and Hoffmann, Michael R. (2019) A hydrogel beads based platform for single-cell phenotypic analysis and digital molecular detection. . (Unpublished)

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Microfluidic platforms integrating phenotyping and genotyping approaches have the potential to advance the understanding of single cell genotype-to-phenotype correlations. These correlations can play a key role in tackling antibiotic heteroresistance, cancer cell heterogeneity, and other related fundamental problems. Herein, we report a novel platform that enables both high-throughput digital molecular detection and single-cell phenotypic analysis, utilizing nanoliter-sized biocompatible polyethylene glycol hydrogel beads produced by a convenient and disposable centrifugal droplet generation device. The hydrogel beads have been demonstrated enhanced thermal stability, and achieved uncompromised efficiencies in digital polymerase chain reaction, digital loop-mediated isothermal amplification, and single cell phenotyping. The crosslinked hydrogel network highlights the prospective linkage of various subsequent molecular analyses to address the genotypic differences between cellular subpopulations exhibiting distinct phenotypes. Our platform shows great potential for applications in clinical practice and medical research, and promises new perspectives in mechanism elucidation of environment-evolution interaction and other basic research areas.

Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription Paper
Zhu, Yanzhe0000-0002-2260-1830
Li, Jing0000-0003-0639-9422
Lin, Xingyu0000-0002-0950-0736
Huang, Xiao0000-0002-3737-6939
Hoffmann, Michael R.0000-0001-6495-1946
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. bioRxiv preprint first posted online Nov. 23, 2019. We thank Dr. Katharina Urmann for helpful discussions. The authors acknowledge the financial support provided by the Bill and Melinda Gates Foundation (grant nos. OPP1111252 and OPP1192379). Author contributions: The manuscript was written through contributions of all authors. M.R.H, X.H., and Y.Z. conceived the concept for this study. J.L., X.H., X.L. and Y.Z. designed the study, Y.Z. performed experiments, and J.L. and Y.Z. wrote the paper. All authors approved of the manuscript. The authors declare no competing financial interests. Data and materials availability: The manuscript and the supplementary materials contain all data needed to evaluate the conclusions in the paper. Correspondence and requests for materials should be addressed to M.R.H.
Funding AgencyGrant Number
Bill and Melinda Gates FoundationOPP1111252
Bill and Melinda Gates FoundationOPP1192379
Record Number:CaltechAUTHORS:20191125-141218051
Persistent URL:
Official Citation:A hydrogel beads based platform for single-cell phenotypic analysis and digital molecular detection. Yanzhe Zhu, Jing Li, Xingyu Lin, Xiao Huang, Michael R. Hoffmann. bioRxiv 848168; doi:
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:100040
Deposited By: Tony Diaz
Deposited On:25 Nov 2019 23:24
Last Modified:03 Mar 2020 13:01

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