ArticleNucleic acids research2006
Microarray-based DNA methylation profiling: technology and applications.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 104 papers.
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Who cites it
104 citing papers in PubMed, 292 citations in OpenAlex.
- Unraveling the layers of epigenetic control in respiratory antiviral defense.Journal of virology · 2026Review
- Functional Genomics Studies of Psychiatric Disorders in Individuals of Latin American Populations: A Scoping Review.American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics · 2026Article
- Fundamentals of DNA methylation in development.Pediatric research · 2025Review
- Comparative performance evaluation of bisulfite- and enzyme-based DNA conversion methods.Clinical epigenetics · 2025Article
- Multi-omics analysis sandbox toolkit for swift derivations of clinically relevant genesets and biomarkers.BMB reports · 2024Article
- BS-clock, advancing epigenetic age prediction with high-resolution DNA methylation bisulfite sequencing data.Bioinformatics (Oxford, England) · 2024Article
- The Research Progress of DNA Methylation in the Development and Function of the Porcine Placenta.International journal of molecular sciences · 2024Review
- Comparison of DNA methylation based classification models for precision diagnostics of central nervous system tumors.NPJ precision oncology · 2024Article
- IMPRESS: Improved methylation profiling using restriction enzymes and smMIP sequencing, combined with a new biomarker panel, creating a multi-cancer detection assay.British journal of cancer · 2024Article
- Wemics: A Single-Base Resolution Methylation Quantification Method for Enhanced Prediction of Epigenetic Regulation.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Effects of DNA Methylation on Gene Expression and Phenotypic Traits in Cattle: A Review.International journal of molecular sciences · 2023Review
- Exploring the relationship between epigenetic DNA methylation and cardiac fibrosis through Raman microspectroscopy.American journal of physiology. Cell physiology · 2023Article
- Whole-genome methylation analysis of aging human tissues identifies age-related changes in developmental and neurological pathways.Aging cell · 2023Article
- Article
- Epigenetic targets in B- and T-cell lymphomas: latest developments.Therapeutic advances in hematology · 2023Review
- Chemoenzymatic labeling of DNA methylation patterns for single-molecule epigenetic mapping.Nucleic acids research · 2022Article
- Mechanisms of DNA Methylation in Virus-Host Interaction in Hepatitis B Infection: Pathogenesis and Oncogenetic Properties.International journal of molecular sciences · 2021Review
- DNA methylation methods: Global DNA methylation and methylomic analyses.Methods (San Diego, Calif.) · 2021Review
- Electrochemically detecting DNA methylation in the EN1 gene promoter: implications for understanding ageing and disease.Bioscience reports · 2020Article
- Epigenetics for Clinicians from the Perspective of Pediatric Rheumatic Diseases.Current rheumatology reports · 2020Review
44 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
This work is dedicated to the development of a technology for unbiased, high-throughput DNA methylation profiling of large genomic regions. In this method, unmethylated and methylated DNA fractions are enriched using a series of treatments with methylation sensitive restriction enzymes, and interrogated on microarrays. We have investigated various aspects of the technology including its replicability, informativeness, sensitivity and optimal PCR conditions using microarrays containing oligonucleotides representing 100 kb of genomic DNA derived from the chromosome 22 COMT region in addition to 12 192 element CpG island microarrays. Several new aspects of methylation profiling are provided, including the parallel identification of confounding effects of DNA sequence variation, the description of the principles of microarray design for epigenomic studies and the optimal choice of methylation sensitive restriction enzymes. We also demonstrate the advantages of using the unmethylated DNA fraction versus the methylated one, which substantially improve the chances of detecting DNA methylation differences. We applied this methodology for fine-mapping of methylation patterns of chromosomes 21 and 22 in eight individuals using tiling microarrays consisting of over 340 000 oligonucleotide probe pairs. The principles developed in this work will help to make epigenetic profiling of the entire human genome a routine procedure.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.