Hepatocellular carcinoma (HCC) incidence has increased in the US and also has one of the
fastest growing death rates of any cancer. The purpose of the current study was to discover …

Background High-throughput profiling of DNA methylation status of CpG islands is crucial to
understand the epigenetic regulation of genes. The microarray-based Infinium methylation …

Aims: Studies of DNA methylomes hold enormous promise for biomedicine but are
hampered by the technological challenges of analyzing many samples cost-effectively …

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 …

Abstract Analysis of DNA methylation patterns relies increasingly on sequencing-based
profiling methods. The four most frequently used sequencing-based technologies are the …

Motivation: A common difficulty in large-scale microarray studies is the presence of
confounding factors, which may significantly skew estimates of statistical significance, cause …

DNA methylation plays a critical role in the regulation of gene expression. The ability to
access the methylation status for a large number of genes or the entire genome should …

The speed and resolution at which we can scour the genome for DNA methylation changes
has improved immeasurably in the last 10 years and the advent of the Illumina 450K …

Background Many different methods exist to adjust for variability in cell-type mixture
proportions when analyzing DNA methylation studies. Here we present the result of an …

DNA methylation is an epigenetic mark that has a crucial role in many biological processes.
To understand the functional consequences of DNA methylation on phenotypic plasticity, a …