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Related Concept Videos

DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Related Experiment Video

Updated: May 8, 2026

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer
07:50

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer

Published on: September 18, 2020

Review of processing and analysis methods for DNA methylation array data.

C S Wilhelm-Benartzi1, D C Koestler, M R Karagas

  • 1Epigenetics Unit, Division of Cancer, Department of Surgery and Cancer, Faculty of Medicine, Ovarian Cancer Action Research Centre, Imperial College London, 4th floor IRDB, Hammersmith Campus, Du Cane Road, London W12 0NN, UK.

British Journal of Cancer
|August 29, 2013
PubMed
Summary
This summary is machine-generated.

Epigenome-wide association studies (EWAS) and DNA methylation analysis are crucial for understanding cancer. This review offers solutions for processing and analyzing array-based DNA methylation data using open-source tools.

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DNA Methylation: Bisulphite Modification and Analysis

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Last Updated: May 8, 2026

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer
07:50

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Published on: September 18, 2020

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12:34

DNA Methylation: Bisulphite Modification and Analysis

Published on: October 21, 2011

Area of Science:

  • Genomics
  • Cancer Research
  • Epigenetics

Background:

  • Epigenome-wide association studies (EWAS) and DNA methylation profiling are increasingly vital for cancer research.
  • Decreasing costs and improving coverage of DNA methylation microarrays have spurred their adoption.
  • Understanding DNA methylation patterns is key to advancing cancer insights.

Purpose of the Study:

  • To review challenges in processing and analyzing array-based DNA methylation data.
  • To summarize solutions for these challenges, focusing on open-source tools.
  • To provide a processing and analysis flowchart for researchers.

Main Methods:

  • Review of existing literature on DNA methylation data processing and analysis.
  • Focus on open-source software environments like R and Bioconductor.
  • Description of publicly available tools and methodologies.

Main Results:

  • Identification of common issues in DNA methylation array data processing and analysis.
  • Summary of advantages of recent, open-source approaches for data handling.
  • A proposed flowchart for effective data analysis.

Conclusions:

  • Effective processing and analysis of DNA methylation data are essential for advancing cancer research.
  • Open-source tools in R and Bioconductor offer accessible solutions for researchers.
  • The provided guidance aims to facilitate the use of DNA methylation array platforms to improve understanding of human health and disease.