Figure 1.

uscfDNA-seq Schematic Protocol

(A) Schematic of the three extraction protocols compared in this manuscript. QiaC refers to the QIAGEN QIAamp Circulating Nucleic Acid Kit regular protocol. QiaM refers to the miRNA protocol of the QIAamp Circulating Nucleic Acid Kit. SPRI refers to the (Solid Phase Reversible Immobilization) magnetic beads and phenol:chloroform:isoamyl alcohol protocol. Compared to QiaC, QiaM and SPRI protocols utilize an increased ratio of isopropanol in order to retain the low-molecular nucleic acids for downstream analysis (refer to methods for details).

(B) Single-stranded library preparation can incorporate dsDNA, ssDNA, and nicked DNA into the library. Unique molecular identifiers (UMI) are incorporated during the library preparation to remove PCR duplicates.