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Journal: Nucleic Acids Research
Article Title: Enriched methylomes of low-input and fragmented DNA using fragment ligation EXclusive methylation sequencing
doi: 10.1093/nar/gkag385
Figure Lengend Snippet: Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, input DNA fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease MspI then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.
Article Snippet: Sheared or unsheared genomic DNA was digested with
Techniques: Sequencing, Preserving, Methylation, Amplification, Ligation, Clinical Proteomics, Formalin-fixed Paraffin-Embedded