This is the development version of MethReg; for the stable release version, see MethReg.
Assessing the regulatory potential of DNA methylation regions or sites on gene transcriptionBioconductor version: Development (3.22)
Epigenome-wide association studies (EWAS) detects a large number of DNA methylation differences, often hundreds of differentially methylated regions and thousands of CpGs, that are significantly associated with a disease, many are located in non-coding regions. Therefore, there is a critical need to better understand the functional impact of these CpG methylations and to further prioritize the significant changes. MethReg is an R package for integrative modeling of DNA methylation, target gene expression and transcription factor binding sites data, to systematically identify and rank functional CpG methylations. MethReg evaluates, prioritizes and annotates CpG sites with high regulatory potential using matched methylation and gene expression data, along with external TF-target interaction databases based on manually curation, ChIP-seq experiments or gene regulatory network analysis.
Author: Tiago Silva [aut, cre] ORCID: 0000-0003-1343-6850 , Lily Wang [aut]
Maintainer: Tiago Silva <tiagochst at gmail.com>
Citation (from within R, entercitation("MethReg")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MethReg")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MethReg")Follow Installation instructions to use this package in your R session.
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