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Related Experiment Video

Updated: Aug 6, 2025

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
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High-Capacity Sample Multiplexing for Single Cell Chromatin Accessibility Profiling.

Gregory T Booth1, Riza M Daza1, Sanjay R Srivatsan1

  • 1Department of Genome Sciences, University of Washington, Seattle, WA, USA.

Biorxiv : the Preprint Server for Biology
|March 22, 2023
PubMed
Summary
This summary is machine-generated.

A new method, sciPlex-ATAC-seq, enables cost-effective single-cell chromatin accessibility profiling across many samples. This technique identifies drug-altered regulatory sites and reveals immune stimulation effects on T-lymphocytes.

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Area of Science:

  • Epigenetics
  • Genomics
  • Immunology

Background:

  • Single-cell chromatin accessibility is crucial for understanding cellular epigenetic states.
  • Current methods for profiling multiple specimens are often expensive and complex.
  • There is a need for scalable techniques to analyze chromatin accessibility across diverse conditions.

Approach:

  • Introduced sciPlex-ATAC-seq, a novel method using DNA oligos for sample-specific nuclear labeling.
  • Enabled concurrent profiling of single-nucleus chromatin accessibility from numerous samples.
  • Demonstrated utility in chemical epigenomics screens and immune stimulation studies.

Key Points:

  • Identified drug-altered distal regulatory sites linked to compound- and dose-dependent transcriptional effects.
  • Analyzed cell type-specific chromatin changes in peripheral blood mononuclear cells (PBMCs) upon immune stimulation.
  • Quantified altered immune cell compositions and isolated allogeneic stimulation effects on T-lymphocytes.

Conclusions:

  • sciPlex-ATAC-seq offers a scalable solution for single-cell epigenomic analysis.
  • The method facilitates discovery of drug-specific epigenetic modifications.
  • Revealed distinct chromatin accessibility changes in T-lymphocytes during immune responses, linking impaired decondensation to inhibited activation.