[HTML][HTML] Epigenome-wide association studies: current knowledge, strategies and recommendations
The aetiology and pathophysiology of complex diseases are driven by the interaction
between genetic and environmental factors. The variability in risk and outcomes in these …
between genetic and environmental factors. The variability in risk and outcomes in these …
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 …
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 …
[HTML][HTML] Introduction to single-cell DNA methylation profiling methods
J Ahn, S Heo, J Lee, D Bang - Biomolecules, 2021 - mdpi.com
DNA methylation is an epigenetic mechanism that is related to mammalian cellular
differentiation, gene expression regulation, and disease. In several studies, DNA …
differentiation, gene expression regulation, and disease. In several studies, DNA …
Reference-free cell mixture adjustments in analysis of DNA methylation data
Motivation: Recently there has been increasing interest in the effects of cell mixture on the
measurement of DNA methylation, specifically the extent to which small perturbations in cell …
measurement of DNA methylation, specifically the extent to which small perturbations in cell …
[HTML][HTML] An evaluation of statistical methods for DNA methylation microarray data analysis
Background DNA methylation offers an excellent example for elucidating how epigenetic
information affects gene expression. β values and M values are commonly used to quantify …
information affects gene expression. β values and M values are commonly used to quantify …
[HTML][HTML] Cell-composition effects in the analysis of DNA methylation array data: a mathematical perspective
Background The impact of cell-composition effects in analysis of DNA methylation data is
now widely appreciated. With the availability of a reference data set consisting of DNA …
now widely appreciated. With the availability of a reference data set consisting of DNA …
[HTML][HTML] Accounting for cellular heterogeneity is critical in epigenome-wide association studies
AE Jaffe, RA Irizarry - Genome biology, 2014 - Springer
Background Epigenome-wide association studies of human disease and other quantitative
traits are becoming increasingly common. A series of papers reporting age-related changes …
traits are becoming increasingly common. A series of papers reporting age-related changes …
Identification of differentially methylated cell types in epigenome-wide association studies
An outstanding challenge of epigenome-wide association studies (EWASs) performed in
complex tissues is the identification of the specific cell type (s) responsible for the observed …
complex tissues is the identification of the specific cell type (s) responsible for the observed …
[HTML][HTML] GeMes, clusters of DNA methylation under genetic control, can inform genetic and epigenetic analysis of disease
Epigenetic marks such as DNA methylation have generated great interest in the study of
human disease. However, studies of DNA methylation have not established population …
human disease. However, studies of DNA methylation have not established population …