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 and simple analysis
  • Many methylation arrays are validated for use with FFPE samples
Illumina Methylation Microarrays: A Breakthrough in Disease Research

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.

MethylationEPIC v2.0

This array is ideal for cancer research, 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 v2.0 supports the next generation of epigenetics research.

Infinium Methylation Screening Array

Ultra-scalable methylation array optimized for population health research. Ideal for studies >1,000 samples, up to millions of samples.

Mouse Methylation BeadChip

The Mouse Methylation BeadChip can be used in EWAS and other experiments probing the methylome in healthy and diseased tissues of model organisms. Much like the MethylationEPIC v2.0, 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 24-sample beadchip enables low per sample and processing costs while maintaining the same robust methylation measurements provided by the Infinium assay.

Multiomics eBook conver

DNA methylation for human disease research

This eBook introduces DNA methylation and its applications for the study of human diseases and other phenotypes. It will also cover epigenome-wide association studies, including considerations for study design, sample types, and data analysis.​

Download eBook

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 v2.0

Robust methylation profiling microarray with extensive coverage of CpG islands, genes, and enhancers and FFPE compatibility.

Infinium Methylation Screening Array

Ultra-scalable methylation array optimized for population health research. Ideal for studies >1,000 samples, up to millions of samples.

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.

Infinium Automation Option Packages

Illumina genotyping automation options for Infinium, GoldenGate, and DASL Assays streamline workflow and reduce errors. Illumina robot control software, together with liquid-handling automation, enables seamless automation of sample preparation into the iScan System workflow.

DRAGEN Array Methylation QC

Cloud-based high-throughput and quantitative reporting for Infinium methylation microarrays.

GenomeStudio Software 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.

View Webinar
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.

View Webinar
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.

Read Interview
The Genetic Basis of Oral Cancer

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

Read Interview
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.

Read Interview
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

Read Article

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

Genetics in Medicine  23 1065-74 2021

Read Article

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

Commun Med 1(1):42 124-29 2021

Read Article
Interested in receiving newsletters, case studies, and information on genomic analysis techniques? Enter your email address.

Methylation Sequencing
Methylation Sequencing

Methylation sequencing approaches offer higher density and flexibility in assessing epigenome changes.

Learn More
Microarray Services
Microarray Services

Illumina experts provide methylation array and genotyping services.

Learn More
Methylation Array Data Analysis
Methylation Array Data Analysis Tips

Explore advanced approaches for analyzing Illumina methylation array data.

Learn More
Field Guide to Methylation Methods
Methylation Field Guide

Explore a variety of methods used to detect cytosine modifications, including methylation arrays and sequencing approaches.

Read Guide