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Updated: Apr 28, 2026
09:08
Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq
Published on: November 13, 2017
17.9K
Exploring the Cancer Immune Epigenome by ATAC-Seq
Chunling Zeng1, Yuexiang Wang2
1CAS Key Laboratory of Tissue Microenvironment and Tumor, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China.
Methods in Molecular Biology (Clifton, N.J.)
|May 22, 2025
Summary
We optimized the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) protocol for cancer immune epigenome research. This rapid method requires minimal samples and works across diverse cell and tissue types.
Area of Science:
- Epigenetics
- Genomics
- Cancer Research
Background:
- The cancer immune epigenome is crucial for understanding tumor biology and response to therapy.
- Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) is a powerful technique to study open chromatin regions.
- Existing ATAC-seq protocols may have limitations in speed, sample input, or applicability.
Purpose of the Study:
- To describe an optimized protocol for ATAC-seq.
- To highlight the advantages of the optimized ATAC-seq method for cancer research.
- To provide a streamlined workflow for exploring the cancer immune epigenome.
Main Methods:
- Nucleus extraction from cells or tissues.
- Transposition of sequencing adapters into accessible chromatin regions.
- Library amplification, sequencing, and subsequent data analysis.
Main Results:
- The optimized ATAC-seq protocol is rapid and sensitive.
- It requires low sample input.
- The protocol is applicable to a wide range of cell and tissue types, including those relevant to cancer immunology.
Conclusions:
- The optimized ATAC-seq protocol offers an efficient method for investigating the cancer immune epigenome.
- Its speed, sensitivity, and broad applicability make it a valuable tool for cancer research.
- This protocol facilitates deeper understanding of epigenetic regulation in the tumor microenvironment.
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