Prediction of promoters and enhancers using multiple DNA methylation-associated features.

ABSTRACT:

Background

Regulatory regions (e.g. promoters and enhancers) play an essential role in human development and disease. Many computational approaches have been developed to predict the regulatory regions using various genomic features such as sequence motifs and evolutionary conservation. However, these DNA sequence-based approaches do not reflect the tissue-specific nature of the regulatory regions. In this work, we propose to predict regulatory regions using multiple features derived from DNA methylation profile.

Results

We discovered several interesting features of the methylated CpG (mCpG) sites within regulatory regions. First, a hypomethylation status of CpGs within regulatory regions, compared to the genomic background methylation level, extended out >1000 bp from the c

SUBMITTER: Hwang W 

PROVIDER: S-EPMC4474542 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature