Skip Navigation
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Your Environment. Your Health.

Publication Detail

Title: oxBS-MLE: an efficient method to estimate 5-methylcytosine and 5-hydroxymethylcytosine in paired bisulfite and oxidative bisulfite treated DNA.

Authors: Xu, Zongli; Taylor, Jack A; Leung, Yuet-Kin; Ho, Shuk-Mei; Niu, Liang

Published In Bioinformatics, (2016 12 01)

Abstract: 5-Methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) are important epigenetic regulators of gene expression. 5mC and 5hmC levels can be computationally inferred at single base resolution using sequencing or array data from paired DNA samples that have undergone bisulfite and oxidative bisulfite conversion. Current estimation methods have been shown to produce irregular estimates of 5hmC level or are extremely computation intensive.We developed an efficient method oxBS-MLE based on binomial modeling of paired bisulfite and oxidative bisulfite data from sequencing or array analysis. Evaluation in several datasets showed that it outperformed alternative methods in estimate accuracy and computation speed.oxBS-MLE is implemented in Bioconductor package ENmix.niulg@ucmail.uc.eduSupplementary information: Supplementary data are available at Bioinformatics online.

PubMed ID: 27522082 Exiting the NIEHS site

MeSH Terms: 5-Methylcytosine/analogs & derivatives*; 5-Methylcytosine/chemistry*; Computational Biology/methods*; CpG Islands; DNA Methylation*; DNA/chemistry*; Models, Theoretical; Sequence Analysis, DNA

Back
to Top