Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA [HumanMethylation450]

ABSTRACT: The gold standard bisulphite conversion technologies to study DNA methylation do not distinguish between 5mC and 5hmC, however new approaches to map 5hmC genome-wide have advanced rapidly, although it is unclear how the different methods compare in accurately calling 5hmC. In this study, we provide a comparative analysis on brain DNA using three 5hmC genome-wide approaches; namely whole-genome bisulphite/oxidative-bisulphite sequencing (WG Bis/OxBis-seq), Infinium HumanMethylation450 BeadChip arrays coupled with oxidative bisulphite (HM450K Bis/OxBis) and antibody-based immunoprecipitation and sequencing of hydroxymethylated DNA (hMeDIP-seq). We also compare the performance of these approaches in adult brain DNA, with a known high abundance of 5hmC, and cancer cell line LNCaP DNA, with cell lines known to have low levels of 5hmC.

ORGANISM(S): Homo sapiens

PROVIDER: GSE94326 | GEO | 2017/03/17

SECONDARY ACCESSION(S): PRJNA369383

REPOSITORIES: GEO