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Related Concept Videos

Protein Dynamics in Living Cells01:19

Protein Dynamics in Living Cells

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Different fluorescence-based techniques are used to study the protein dynamics in living cells. These techniques include FRAP, FRET, and PET.
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
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Related Experiment Video

Updated: Apr 24, 2026

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples
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Stochastic particle barcoding for single-cell tracking and multiparametric analysis.

M Castellarnau1, G L Szeto, H-W Su

  • 1Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA.

Small (Weinheim an Der Bergstrasse, Germany)
|September 3, 2014
PubMed
Summary
This summary is machine-generated.

Stochastic particle barcoding (SPB) enables cell tracking across platforms using unique fluorescent bead codes within hydrogels. This method ensures accurate cell identity preservation during sample transfers for downstream analysis.

Keywords:
barcodescellshydrogelslab-on-a-chip deviceslabeling

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Area of Science:

  • Biotechnology
  • Cell Biology
  • Genomics

Background:

  • Maintaining cell identity during multi-platform analysis is crucial for accurate biological insights.
  • Current methods for sample transfer between bioanalytical platforms can lead to loss of individual cell identity.
  • Developing robust cell tracking methods is essential for advancing high-throughput biological assays.

Purpose of the Study:

  • To introduce stochastic particle barcoding (SPB) as a novel method for tracking cell identity across diverse bioanalytical platforms.
  • To demonstrate the efficacy of SPB in preserving cell identity during sample transfers between different assay formats.
  • To provide a scalable framework for cell barcoding and tracking in complex biological workflows.

Main Methods:

  • Co-encapsulation of single cells or small cell populations within enzymatically-degradable hydrogel blocks.
  • Incorporation of a random collection of fluorescent beads (varying in number, color, and position) to encode unique cell identities.
  • Transfer of barcoded cells between subnanoliter protein secretion/phenotyping arrays and microtiter plates, followed by hydrogel digestion for recovery.

Main Results:

  • Achieved high re-identification accuracies of 96±2% for cells transferred into microtiter plates using SPB.
  • Demonstrated successful recovery of encapsulated cells via hydrogel digestion for subsequent genotyping and phenotyping.
  • Developed a scaling model to predict SPB accuracy based on varying parameters and to guide future method optimization.

Conclusions:

  • Stochastic particle barcoding (SPB) offers a reliable solution for preserving cell identity during inter-platform sample transfers.
  • SPB facilitates downstream molecular analysis (genotyping, phenotyping) of individual cells after transfer.
  • The method is scalable and adaptable for tracking large numbers of unique cell identities in complex bioanalytical workflows.