Characterization of universal features of partially methylated domains across tissues and species.

ABSTRACT:

Background

Partially methylated domains (PMDs) are a hallmark of epigenomes in reproducible and specific biological contexts, including cancer cells, the placenta, and cultured cell lines. Existing methods for deciding whether PMDs exist in a sample, as well as their identification, are few, often tailored to specific biological questions, and require high coverage samples for accurate identification.

Results

In this study, we outline a set of axioms that take a step towards a functional definition for PMDs, describe an improved method for comparable PMD detection across samples with substantially differing sequencing depths, and refine the decision criteria for whether a sample contains PMDs using a data-driven approach. Applying our method to 267 methylomes from 7 species,

SUBMITTER: Decato BE 

PROVIDER: S-EPMC7532633 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature