Methylation Microarray
Methylation Microarray - Related Videos
21:24
Methylated DNA Immunoprecipitation
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Cited by 43 •
2009
This video demonstrates the protocol for methylated DNA immunoprecipitation (MeDIP). MeDIP is a two day procedure that selectively extracts methylated DNA fragments from a genomic DNA sample using antibodies with specificity for 5 -methylcytosine (anti-5 mC).
08:29
Expression Profiling with Microarrays
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2023
Microarrays are important tools for profiling gene expression, and are based on complementary binding between probes that are attached to glass chips and nucleic acids derived from samples. Using these arrays, scientists can simultaneously evaluate the expression of thousands of genes. In addition, the expression profiles of different cells or tissue types can be compared, allowing researchers to deduce how the expression of different genes change during biological processes, and thus gain...
09:47
Analysis of Histone Antibody Specificity with Peptide Microarrays
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Cited by 22 •
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This manuscript describes methods for applying peptide microarray technology to specificity profiling of antibodies that recognize histones and their post-translational modifications.
08:47
DNA Methylation Analysis
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2023
Methylation at CpG dinucleotides is a chemical modification of DNA hypothesized to play important roles in regulating gene expression. In particular, the methylation of clusters of methylation sites, called “CpG islands”, near promoters and other gene regulatory elements may contribute to the stable silencing of genes, for example, during epigenetic processes such as genomic imprinting and X-chromosome inactivation. At the same time, aberrant CpG methylation has been shown to be associated with...
13:21
Comprehensive DNA Methylation Analysis Using a Methyl-CpG-binding Domain Capture-based Method in Chronic Lymphocytic Leukemia Patients
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Cited by 2 •
2017
This work describes an optimized methyl-CpG-binding domain (MBD) sequencing protocol and a computational pipeline to identify differentially methylated CpG-rich regions in chronic lymphocytic leukemia (CLL) patients.
FAQs
Bisulfite treatment creates the chemical distinction measured by the assay. Unmethylated cytosines are converted to uracil, whereas methylated cytosines remain unchanged. After labeling, these sequence differences affect how DNA interacts with methylation-sensitive probes. The resulting probe signals therefore provide a basis for estimating methylation levels at individual CpG sites across many genomic locations.
Probes are designed to respond differently to DNA sequences altered or preserved by bisulfite treatment. Labeled DNA hybridizes to these probes, and the resulting fluorescence intensity reflects the methylation state represented at a specific CpG site. Comparing signal patterns across sites allows researchers to calculate methylation levels and examine genome-wide epigenetic differences between samples.
CpG sites provide defined genomic positions at which methylation can be measured and compared. When groups of sites show different methylation levels between tissues or conditions, researchers can identify differentially methylated regions. These patterns help connect epigenetic variation with gene regulation, genomic imprinting, development, disease, environmental exposure, or treatment response.
A typical workflow begins with DNA treatment using bisulfite, followed by labeling of the treated DNA. The labeled material is then hybridized to methylation-sensitive probes on the array. Fluorescence is measured after hybridization, and those signals are used to calculate methylation levels at targeted CpG sites, producing a broad profile for comparison across samples.
Researchers may choose this approach when they need methylation measurements across thousands of genomic sites rather than a narrowly selected locus. It supports comparisons among tissues and can reveal epigenetic patterns associated with development, disease, environmental exposure, or treatment response. The broad profiling strategy is particularly useful for investigating genome-wide regulation and candidate biomarkers.
Methylation profiles can show how epigenetic patterns differ among tissues, biological conditions, or treatment groups. Researchers can use these comparisons to identify differentially methylated regions and investigate possible biomarkers. In genetics, the profiles also support studies of gene regulation and genomic imprinting, linking methylation patterns with developmental or disease-related states.