MeDEStrand: an improved method to infer genome-wide absolute methylation levels from DNA enrichment data.

ABSTRACT:

Background

DNA methylation of CpG dinucleotides is an essential epigenetic modification that plays a key role in transcription. Widely used DNA enrichment-based methods offer high coverage for measuring methylated CpG dinucleotides, with the lowest cost per CpG covered genome-wide. However, these methods measure the DNA enrichment of methyl-CpG binding, and thus do not provide information on absolute methylation levels. Further, the enrichment is influenced by various confounding factors in addition to methylation status, for example, CpG density. Computational models that can accurately derive absolute methylation levels from DNA enrichment data are needed.

Results

We developed "MeDEStrand," a method that uses a sigmoid function to estimate and correct the CpG bias from enr

SUBMITTER: Xu J 

PROVIDER: S-EPMC6303941 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature