Tools & Data

CpG_Me

A whole-genome bisulfite sequencing (WGBS) pipeline for the analysis and QC of DNA methylation that goes from from raw reads to a CpG count matrix.

DMRichR:

An executable and package for the statistical analysis and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports).

Example DMR: Each dot represents the methylation level of an individual CpG in a single sample, where the size of the dot is representative of coverage. The lines represent smoothed methylation levels for each sample, either control (blue) or DS (red). Genic and CpG annotations are shown below the plot.
Example DMR: Each dot represents the methylation level of an individual CpG in a single sample, where the size of the dot is representative of coverage. The lines represent smoothed methylation levels for each sample, either control (blue) or DS (red). Genic and CpG annotations are shown below the plot.

 

GEO Data:

Cumulative Impact of Polychlorinated Biphenyl and Large Chromosomal Duplications on DNA Methylation, Chromatin, and Expression of Autism Candidate Genes

The Human Placenta Methylome

Role of DNMT3B in the Regulation of Early Neural and Neural Crest Specifiers

Large-Scale Methylation Domains Mark a Functional Subset of Neuronally Expressed Genes

Integrated Epigenomic Analyses of Neuronal MeCP2 Reveal a Role for Long-Range Interaction With Active Genes

Identifying Targets of MeCP2 During Neuronal Maturational Differentiation