Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Video

Updated: Jun 2, 2026

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies
14:56

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

Protocol matters: which methylome are you actually studying?

Mark D Robinson1, Aaron L Statham, Terence P Speed

  • 1Epigenetics Laboratory, Cancer Program, Garvan Institute of Medical Research, 384 Victoria Street, Darlinghurst, NSW 2010, Australia. mrobinson@wehi.edu.au

Epigenomics
|May 14, 2011
PubMed
Summary

Investigating DNA methylation technologies reveals challenges in achieving comprehensive and unbiased methylome views cost-effectively. Current methods have inherent biases, but new sequencing technologies promise improved epigenome analysis.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Convergence and divergence of DNA methylation and gene expression patterns in neopolyploid Arabidopsis kamchatica.

Nature communications·2026
Same author

DNA methylation reprogramming in marsupial embryos is restricted to the extraembryonic lineage.

Nature communications·2026
Same author

Hybrid untargeted short-read and targeted long-read RNA sequencing facilitates genotype-phenotype associations at single-cell resolution.

Genome biology·2026
Same author

Interplay of the 3D genome and epigenome in androgen-driven prostate cancer.

Epigenomics·2026
Same author

Resolving Sialylated N-Glycans and Immune Cell Landscapes Using a Unified Same-Section IMC-MSI Workflow.

bioRxiv : the preprint server for biology·2026
Same author

MIMIC: a flexible pipeline to register and summarize IMC-MSI experiments.

Communications biology·2026

Area of Science:

  • Epigenetics
  • Genomics
  • Molecular Biology

Background:

  • Emerging technologies, primarily second-generation sequencing, are advancing epigenetics research.
  • Genome-wide interrogation of DNA methylation and histone modifications is crucial for understanding cellular processes.

Purpose of the Study:

  • To analyze the impact of DNA sequence and biases in genome-wide DNA methylation technologies.
  • To explore bioinformatics tools for deconvolving these biases.
  • To evaluate current technologies against criteria for comprehensive methylome analysis.

Main Methods:

  • Review of second-generation sequencing technologies for DNA methylation analysis.
  • Assessment of sequence- and protocol-induced biases in methylation datasets.
  • Exploration of bioinformatics tools for data deconvolution.
Keywords:
DNA methylationepigeneticshigh-throughput sequencingtiling arrays

More Related Videos

Immunostaining for DNA Modifications: Computational Analysis of Confocal Images
09:42

Immunostaining for DNA Modifications: Computational Analysis of Confocal Images

Published on: September 7, 2017

Methyl-binding DNA capture Sequencing for Patient Tissues
08:40

Methyl-binding DNA capture Sequencing for Patient Tissues

Published on: October 31, 2016

Related Experiment Videos

Last Updated: Jun 2, 2026

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies
14:56

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

Immunostaining for DNA Modifications: Computational Analysis of Confocal Images
09:42

Immunostaining for DNA Modifications: Computational Analysis of Confocal Images

Published on: September 7, 2017

Methyl-binding DNA capture Sequencing for Patient Tissues
08:40

Methyl-binding DNA capture Sequencing for Patient Tissues

Published on: October 31, 2016

Main Results:

  • Current genome-wide DNA methylation technologies face challenges in providing exhaustive and unbiased methylome data cost-effectively.
  • The fraction of the methylome studied is dictated by the inherent biases of the chosen protocol.
  • No single current technology meets criteria for high coverage, high resolution, and reasonable cost simultaneously.

Conclusions:

  • Significant learning is still needed regarding the performance of genome-wide epigenetic technologies and their biological reflection.
  • Third-generation sequencing technologies hold promise for revolutionizing genome and epigenome studies.
  • Addressing technological biases is key to advancing epigenetics research.