Investigation of different library preparation and tissue of origin deconvolution methods for urine and plasma cfDNA methylome analysis

In this study, a single- and a double-stranded library preparation approach was evaluated with respect to their technical biases when applied on cfDNA from plasma and urine. This study thus outlines potential limitations of double-stranded library preparation for methylation analysis of cfDNA especially for urinary cfDNA. While the double-stranded method allows jagged end analysis in addition to TOO analysis, it leads to significant methylation bias in urinary cfDNA, which single-stranded methods can overcome.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 1 Publication

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001010937	Low-coverage whole genome methylation sequencing of cell-free DNA (cfDNA) from healthy volunteers (n=2) and allograft transplant recipients (n=11). The cfDNA was extracted from urine and plasma and sequenced using both a single- and double-strand library preparation method (n=15 and n=18).	Illumina NovaSeq 6000	33

Publications	Citations
Investigation of Different Library Preparation and Tissue of Origin Deconvolution Methods for Urine and Plasma cfDNA Methylome Analysis. Kueng N, Sidler D, Banz V, Largiadèr CR, Ng CKY, Amstutz U. Diagnostics (Basel) 13: 2023 2505	0