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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 30, 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

High density DNA methylation array with single CpG site resolution.

Marina Bibikova1, Bret Barnes, Chan Tsan

  • 1Illumina, Inc. 9885 Towne Centre Drive, San Diego, CA 92121, USA. mbibikova@illumina.com

Genomics
|August 16, 2011
PubMed
Summary
This summary is machine-generated.

A new high-density BeadChip enables high-throughput genome-wide DNA methylation profiling of over 480K CpG sites. This advanced tool provides highly comparable results to whole-genome bisulfite sequencing, accelerating methylation research.

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DNA Methylation: Bisulphite Modification and Analysis

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Last Updated: May 30, 2026

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer
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08:38

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DNA Methylation: Bisulphite Modification and Analysis
12:34

DNA Methylation: Bisulphite Modification and Analysis

Published on: October 21, 2011

Area of Science:

  • Genomics
  • Epigenetics
  • Molecular Biology

Background:

  • DNA methylation is a critical epigenetic mechanism regulating gene expression.
  • Accurate and high-throughput genome-wide DNA methylation profiling is essential for understanding various biological processes and diseases.
  • Existing methods may have limitations in throughput, coverage, or cost-effectiveness.

Purpose of the Study:

  • To introduce a novel, high-density genome-wide DNA methylation BeadChip for high-throughput profiling.
  • To assess the performance and comparability of the new BeadChip technology against established methods like whole-genome bisulfite sequencing (WGBS).
  • To provide a comprehensive resource for advancing DNA methylation research.

Main Methods:

  • Development of a new generation high-density BeadChip assaying over 480,000 CpG sites.
  • Utilizing the well-established Infinium® Assay with bisulfite-converted genomic DNA.
  • Parallel analysis of twelve samples for high-throughput processing.
  • Comparative analysis with whole-genome bisulfite sequencing (WGBS) data from matched normal and tumor DNA samples.

Main Results:

  • The new BeadChip offers extensive coverage, including 99% of RefSeq genes and 96% of CpG islands.
  • Highly comparable DNA methylation profiles were generated between the BeadChip array and WGBS methods (average R² of 0.95).
  • The technology successfully analyzed DNA methylation in both normal and tumor samples.

Conclusions:

  • The developed high-density BeadChip represents a significant advancement for high-throughput, genome-wide DNA methylation analysis.
  • This technology provides a reliable and comparable alternative to WGBS for comprehensive methylation profiling.
  • The ability to efficiently determine genome-wide methylation patterns will accelerate discoveries in epigenetics and related fields.