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Updated: May 29, 2026

Targeted DNA Methylation Analysis by Next-generation Sequencing

Targeted DNA Methylation Analysis by Next-generation Sequencing

Published on: February 24, 2015

DNA methylation profiling in nanochannels.

Shuang Fang Lim¹, Alena Karpusenko, John J Sakon

¹Department of Physics, North Carolina State University, Raleigh, North Carolina 27695, USA.

Biomicrofluidics

|August 27, 2011

Summary

This summary is machine-generated.

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This study presents a new method for mapping 5-methyl cytosine distribution on single DNA molecules. The technique achieves gene-relevant resolution for epigenetic profiling of DNA methylation.

Area of Science:

Epigenetics
Molecular Biology
Genomics

Background:

DNA methylation is a crucial epigenetic modification regulating gene expression.
Understanding DNA methylation patterns at single-molecule resolution is vital for various biological processes.
Current methods face limitations in achieving high resolution and throughput for DNA methylation profiling.

Purpose of the Study:

To develop and validate a novel technique for profiling 5-methyl cytosine distribution on single, genomic-sized DNA molecules.
To achieve gene-relevant resolution for mapping DNA methylation patterns.
To enable detailed analysis of epigenetic modifications in individual DNA molecules.

Main Methods:

Linearizing and stretching single DNA molecules within nanochannels (approx. 250x200 nm).

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DNA Methylation: Bisulphite Modification and Analysis

DNA Methylation: Bisulphite Modification and Analysis

Published on: October 21, 2011

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Last Updated: May 29, 2026

Targeted DNA Methylation Analysis by Next-generation Sequencing

Targeted DNA Methylation Analysis by Next-generation Sequencing

Published on: February 24, 2015

Continuous Fluorescence-Based Endonuclease-Coupled DNA Methylation Assay to Screen for DNA Methyltransferase Inhibitors

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Published on: August 5, 2022

DNA Methylation: Bisulphite Modification and Analysis

DNA Methylation: Bisulphite Modification and Analysis

Published on: October 21, 2011

Utilizing fluorescently labeled methyl-CpG binding domain proteins (MBD) for methylation detection.

Generating DNA barcodes based on MBD binding to methylated and non-methylated segments.

Main Results:

Spatially resolved detection of MBD binding on DNA barcodes, including short and long concatemers.
Achieved a resolution better than 10 kbp for methylation profiling.
Demonstrated single-molecule read-lengths exceeding 140 kbp.

Conclusions:

The developed method provides high-resolution, single-molecule profiling of 5-methyl cytosine distribution.
This technique offers a powerful tool for detailed epigenetic analysis of DNA.
The high resolution and long read-lengths open new avenues for studying DNA methylation dynamics.