Comprehensive comparison of enzymatic and bisulfite DNA methylation analysis in clinically relevant samples.

ABSTRACT:

Background

Bisulfite conversion is considered the gold standard for DNA methylation analysis, but it damages DNA and performs sub-optimally with clinical samples (e.g., formalin-fixed paraffin-embedded and circulating free plasma DNA (cfDNA)). Here we describe a comprehensive comparison of bisulfite and enzymatic methylation sequencing, using commercially available assays in clinically relevant patient samples and cell lines. We also report the first clinical enzymatic whole genome methylation sequencing (WGMS) in a cohort of patients with chronic lymphocytic leukemia (CLL). We report data from a multi-arm experiment comprising controlled reference material and clinically relevant samples to assess technical differences between enzymatic and chemical methylation conversion technolo

SUBMITTER: Nuttall B 

PROVIDER: S-EPMC12495756 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature