Comprehensive coverage for genome-wide DNA methylation studies

Quantitatively interrogate methylation sites across the genome at single-nucleotide resolution with methylation microarrays

Methylation Array Analysis

Methylation arrays enable quantitative interrogation of selected methylation sites across the genome, offering high-throughput capabilities that minimize the cost per sample. Array-based methylation studies can provide valuable insights into the regulation of gene expression. DNA methylation allows cells to suppress expression of viral and nonhost DNA elements, and facilitates response to environmental stimuli. Aberrant DNA methylation (hyper- or hypomethylation) and its impact on gene expression have been implicated in many biological processes and diseases.

Methylation microarrays combine comprehensive coverage and high-throughput capabilities. Advantages include:

  • Comprehensive genome-wide coverage of content categories requested by methylation experts such as: 
    • CpG islands
    • Non-CpG and differentially methylated sites
    • Enhancers
    • Open chromatin
    • Transcription factor binding sites
    • miRNA promoter regions
  • Assay reproducibility
    • > 98% reproducibility between technical replicates for all Illumina Infinium methylation arrays
  • User-friendly, streamlined workflow
  • Many methylation arrays are validated for use with FFPE samples
Lab technician reviewing array
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Illumina Methylation Arrays

The Infinium Methylation Assay allows you to interrogate CpG sites at single-nucleotide resolution, providing highly robust measurements of DNA methylation. Choose from one of our curated genome-wide arrays, or design your own microarray for targeted applications.

Human MethylationEPIC BeadChip

This array is ideal for epigenome-wide association studies (EWAS), tumor profiling, and various cell biology experiments. It offers comprehensive, expert-selected coverage, including 99% of RefSeq genes, 95% of CpG islands, high coverage of enhancer regions, and other content categories. With > 90% of the original content from the Infinium HumanMethylation450K covered, the MethylationEPIC kit supports the next generation of epigenetics research.

Mouse Methylation BeadChip

The Mouse Methylation BeadChip can be used in EWAS and other experiments probing the methylome in healthy and diseased tissues. Much like the MethylationEPIC BeadChip, the Mouse Methylation BeadChip offers genome-wide coverage, with probes targeted to CpG islands, enhancer regions, transcription start sites, and other important regions of the methylome.

HTS iSelect Methyl Custom BeadChip

Custom Methylation Beadchips provide the ultimate flexibility and cost-savings for targeted research and commercial applications. Custom beadchips can be designed with between 3,000 and 100,000 markers for a variety of applications. The high-throughput 24-sample beadchip reduces per sample and processing costs while maintaining the same robust methylation measurements provided by the Infinium assay.

Our methylation arrays follow a streamlined workflow, enabling processing of up to 96 samples simultaneously from low sample input (as little as 250 ng).

Offering quantitative measurement at the single-CpG-site level, these methylation microarrays offer powerful resolution for understanding epigenetic changes.

Click on the below to view products for each workflow step.

MethylationEPIC BeadChip

Robust methylation profiling microarray with extensive coverage of CpG islands, genes, and enhancers and FFPE compatibility. Use for epigenome-wide association studies and other experiments.

Infinium Mouse Methylation BeadChip

Features > 285k markers across the methylome for high resolution epigenetic analyses of diverse murine strains.

Infinium Custom Methylation Kit

Create made-to-order, high-throughput assays to fit your specific needs. The flexibility and features of this array make it a powerful tool for a wide range of epigenetic applications.

iScan System

Supports high-throughput BeadChip processing, scanning hundreds to thousands of samples quickly and accurately.

GenomeStudio Software and Methylation Module

Visualize Infinium controls to ensure quality processing and perform basic analysis on DNA methylation beadchip data.

Exploring the Genetics of Neuropsychiatric Disease
Genetics of Neuropsychiatric Disease

Dr. Kristen Brennand discusses how integrating methylation array data with DNA and RNA sequencing data from stem cells can help identify disease-associated genes and pathways.

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DNA Methylation Classifiers for Brain Tumors and Sarcomas
Cancer Cell and DNA

Dr. Matija Snuderl discusses his team's research into the use of machine learning and epigenetic signatures to improve the accuracy of solid tumor classifications, especially for brain tumors and sarcomas.

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Methylome and Clinical Outcomes

Dr. Kathleen C. Barnes describes her work as a genetic epidemiologist, how COVID-19 impacted her research plans, and how methylation arrays add another dimension to the study of infectious diseases.

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The Genetic Basis of Oral Cancer

Researchers use methylation arrays together with RNA-Seq and other NGS methods to identify genetic alterations associated with a deadly oral cancer.

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Epigenetics Studies Uncover Obesity-Driven Methylation Signatures

Dr. Samani at University of Leicester uses methylation arrays to identify cell signaling disruption linked with high BMI.

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Complex Disease Studies
Methylation Profiling for Complex Disease Studies

Methylation array studies enable researchers to understand the functional mechanisms at work in complex disease. Illumina offers complementary solutions for researchers studying these disorders. Learn more about complex disease research.

Epigenetics and Cancer
Cancer Epigenetics

Illumina array and sequencing solutions are ideal for detecting altered methylation patterns and epigenetic changes that provide insight into tumorigenic pathways and cancer progression. Learn more about cancer epigenetics.

DNA methylation-based classification of central nervous system tumours.

Nature 555 469-74 2018

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Clinical epigenomics: genome-wide DNA methylation analysis for the diagnosis of Mendelian disorders.

Genetics in Medicine  23 1065-74 2021

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Host methylation predicts SARS-CoV-2 infection and clinical outcome.

Commun Med 1(1):42 124-29 2021

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