Comparison of Bisulfite Pyrosequencing and Methylation-Specific qPCR for Methylation Assessment.

ABSTRACT: Different methodological approaches are available to assess DNA methylation biomarkers. In this study, we evaluated two sodium bisulfite conversion-dependent methods, namely pyrosequencing and methylation-specific qPCR (MS-qPCR), with the aim of measuring the closeness of agreement of methylation values between these two methods and its effect when setting a cut-off. Methylation of tumor suppressor gene p16/INK4A was evaluated in 80 lung cancer patients from which cytological lymph node samples were obtained. Cluster analyses were used to establish methylated and unmethylated groups for each method. Agreement and concordance between pyrosequencing and MS-qPCR was evaluated with Pearson's correlation, Bland-Altman, Cohen's kappa index and ROC curve analyses. Based on these analyses, cut-off

SUBMITTER: De Chiara L 

PROVIDER: S-EPMC7730915 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature