Evidence
Nat Commun. 2024 Mar 30;15(1):2790. doi: 10.1038/s41467-024-47196-6.
ABSTRACT
Analysis of DNA methylation in cell-free DNA reveals clinically relevant biomarkers but requires specialized protocols such as whole-genome bisulfite sequencing. Meanwhile, millions of cell-free DNA samples are being profiled by whole-genome sequencing. Here, we develop FinaleMe, a non-homogeneous Hidden Markov Model, to predict DNA methylation of cell-free DNA and, therefore, tissues-of-origin, directly from plasma whole-genome sequencing. We validate the performance with 80 pairs of deep and shallow-coverage whole-genome sequencing and whole-genome bisulfite sequencing data.
PMID:38555308 | DOI:10.1038/s41467-024-47196-6
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FinaleMe: Predicting DNA methylation by the fragmentation patterns of plasma cell-free DNA
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FinaleMe: Predicting DNA methylation by the fragmentation patterns of plasma cell-free DNA
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