MEDME: an experimental and analytical methodology for the estimation of DNA methylation levels based on microarray derived MeDIP-enrichment
M Pelizzola, Y Koga, AE Urban… - Genome …, 2008 - genome.cshlp.org
DNA methylation is an important component of epigenetic modifications that influences the
transcriptional machinery and is aberrant in many human diseases. Several methods have …
transcriptional machinery and is aberrant in many human diseases. Several methods have …
Quantitative comparison of genome-wide DNA methylation mapping technologies
DNA methylation plays a key role in regulating eukaryotic gene expression. Although
mitotically heritable and stable over time, patterns of DNA methylation frequently change in …
mitotically heritable and stable over time, patterns of DNA methylation frequently change in …
Identifying mislabeled and contaminated DNA methylation microarray data: an extended quality control toolset with examples from GEO
JA Heiss, AC Just - Clinical epigenetics, 2018 - Springer
Background Mislabeled, contaminated or poorly performing samples can threaten power in
methylation microarray analyses or even result in spurious associations. We describe a set …
methylation microarray analyses or even result in spurious associations. We describe a set …
Batch effect correction for genome-wide methylation data with Illumina Infinium platform
Background Genome-wide methylation profiling has led to more comprehensive insights
into gene regulation mechanisms and potential therapeutic targets. Illumina Human …
into gene regulation mechanisms and potential therapeutic targets. Illumina Human …
High-throughput DNA methylation profiling using universal bead arrays
M Bibikova, Z Lin, L Zhou, E Chudin… - Genome …, 2006 - genome.cshlp.org
We have developed a high-throughput method for analyzing the methylation status of
hundreds of preselected genes simultaneously and have applied it to the discovery of …
hundreds of preselected genes simultaneously and have applied it to the discovery of …
CoMeBack: DNA methylation array data analysis for co-methylated regions
Motivation High-dimensional DNA methylation (DNAm) array coverage, while sparse in the
context of the entire DNA methylome, still constitutes a very large number of CpG probes …
context of the entire DNA methylome, still constitutes a very large number of CpG probes …
DNA methylation data analysis and its application to cancer research
With the rapid development of genome-wide high-throughput technologies, including
expression arrays, SNP arrays and next-generation sequencing platforms, enormous …
expression arrays, SNP arrays and next-generation sequencing platforms, enormous …
An evaluation of supervised methods for identifying differentially methylated regions in Illumina methylation arrays
Epigenome-wide association studies (EWASs) have become increasingly popular for
studying DNA methylation (DNAm) variations in complex diseases. The Illumina methylation …
studying DNA methylation (DNAm) variations in complex diseases. The Illumina methylation …
Whole genome DNA methylation analysis based on high throughput sequencing technology
N Li, M Ye, Y Li, Z Yan, LM Butcher, J Sun, X Han… - Methods, 2010 - Elsevier
There are numerous approaches to decipher a whole genome DNA methylation profile
(“methylome”), each varying in cost, throughput and resolution. The gold standard of these …
(“methylome”), each varying in cost, throughput and resolution. The gold standard of these …
RnBeads 2.0: comprehensive analysis of DNA methylation data
DNA methylation is a widely investigated epigenetic mark with important roles in
development and disease. High-throughput assays enable genome-scale DNA methylation …
development and disease. High-throughput assays enable genome-scale DNA methylation …