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Related Experiment Video

Updated: Dec 27, 2025

Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
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Advanced Cell Mapping Visualizations for Single Cell Functional Proteomics Enabling Patient Stratification.

Nick Bowman1, Dong Liu1, Patrick Paczkowski1

  • 1IsoPlexis Corporation, Branford, CT, 06405, USA.

Proteomics
|February 29, 2020
PubMed
Summary
This summary is machine-generated.

Highly multiplexed single-cell proteomics identifies polyfunctional cell subsets linked to CAR-T therapy response. Advanced visualization tools reveal distinct cytokine profiles, aiding biomarker discovery and personalized treatment development.

Keywords:
IsoCode chipdata visualizationsingle-cell proteomicst-distributed stochastic neighbor embeddinguniform manifold approximation and projection

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Area of Science:

  • Immunology
  • Proteomics
  • Biotechnology

Background:

  • Single-cell functional proteomics offers insights into cellular heterogeneity.
  • Microchip-based proteomics enables identification of polyfunctional cell subsets co-secreting proteins.
  • This approach can correlate with patient therapy response.

Purpose of the Study:

  • To develop advanced visualization tools for single-cell proteomic data.
  • To complement the clinical relevance of the polyfunctional strength index (PSI).
  • To analyze cytokine profiles in anti-CD19 chimeric antigen receptor (CAR)-T products.

Main Methods:

  • Utilized 32-plex IsoCode chip technology for single-cell proteomics.
  • Developed a visualization toolkit using 3D uniform manifold approximation and projection (UMAP) and t-distributed stochastic neighbor embedding (t-SNE).
  • Analyzed cytokine secretion profiles of CAR-T cells from patients.

Main Results:

  • Defined a polyfunctional strength index (PSI) associated with CAR-T therapy response.
  • UMAP and t-SNE revealed distinct cytokine profiles between responders and non-responders.
  • Identified an upregulation of antitumor-associated cytokine signatures in CAR-T cells from responding patients.

Conclusions:

  • Advanced visualization of single-cell proteomic data can dissect complex immune responses.
  • This approach facilitates correlative biomarker discovery and personalized treatment development.
  • The developed tools enhance understanding of CAR-T cell therapy mechanisms and outcomes.