Probabilistic modeling methods for cell-free DNA methylation based cancer classification.

ABSTRACT:

Background

cfMeDIP-seq is a low-cost method for determining the DNA methylation status of cell-free DNA and it has been successfully combined with statistical methods for accurate cancer diagnostics. We investigate the diagnostic classification aspect by applying statistical tests and dimension reduction techniques for feature selection and probabilistic modeling for the cancer type classification, and we also study the effect of sequencing depth.

Methods

We experiment with a variety of statistical methods that use different feature selection and feature extraction methods as well as probabilistic classifiers for diagnostic decision making. We test the (moderated) t-tests and the Fisher's exact test for feature selection, principal component analysis (PCA) as well as iterati

SUBMITTER: Halla-Aho V 

PROVIDER: S-EPMC8978416 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature