QSEA-modelling of genome-wide DNA methylation from sequencing enrichment experiments.

ABSTRACT: Genome-wide enrichment of methylated DNA followed by sequencing (MeDIP-seq) offers a reasonable compromise between experimental costs and genomic coverage. However, the computational analysis of these experiments is complex, and quantification of the enrichment signals in terms of absolute levels of methylation requires specific transformation. In this work, we present QSEA, Quantitative Sequence Enrichment Analysis, a comprehensive workflow for the modelling and subsequent quantification of MeDIP-seq data. As the central part of the workflow we have developed a Bayesian statistical model that transforms the enrichment read counts to absolute levels of methylation and, thus, enhances interpretability and facilitates comparison with other methylation assays. We suggest several calibration s

SUBMITTER: Lienhard M 

PROVIDER: S-EPMC5389680 | biostudies-literature | 2017 Apr

REPOSITORIES: biostudies-literature