2021
DOI: 10.1093/clinchem/hvaa325
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Jagged Ends of Urinary Cell-Free DNA: Characterization and Feasibility Assessment in Bladder Cancer Detection

Abstract: Background Double-stranded DNA in plasma is known to carry single-stranded ends, called jagged ends. Plasma DNA jagged ends are biomarkers for pathophysiologic states such as pregnancy and cancer. It remains unknown whether urinary cell-free DNA (cfDNA) molecules have jagged ends. Methods Jagged ends of cfDNA were detected by incorporating unmethylated cytosines during a DNA end-repair process, followed by bisulfite sequencin… Show more

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Cited by 31 publications
(32 citation statements)
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“…Elevated end motif diversities were observed in different cancer entities with reduced DNASE1L3 expression levels (e.g., colorectal and lung cancer) [67]. More recently, cfDNA molecules were found to possess single-stranded 5 DNA overhangs [60,61]. The presence of these jagged ends is normally masked by the end repair step during conventional sequencing library preparation.…”
Section: Cancer-associated Alterations Of Cfdna Fragment End Sequencesmentioning
confidence: 99%
See 3 more Smart Citations
“…Elevated end motif diversities were observed in different cancer entities with reduced DNASE1L3 expression levels (e.g., colorectal and lung cancer) [67]. More recently, cfDNA molecules were found to possess single-stranded 5 DNA overhangs [60,61]. The presence of these jagged ends is normally masked by the end repair step during conventional sequencing library preparation.…”
Section: Cancer-associated Alterations Of Cfdna Fragment End Sequencesmentioning
confidence: 99%
“…The ends of cfDNA fragments provide insights into the biology of cfDNA fragmentation and were also shown to have potential clinical implications in cancer patients. Such informative characteristics include the genomic location of the fragment ends [ 55 , 56 ], their sequence context at the 5′-end [ 39 , 57 , 58 , 59 ], and single-stranded 5′ protruding (“jagged”) ends [ 60 , 61 ]. Whole genome sequencing (WGS) of cfDNA from pregnant women has shown that cfDNA fragment ends are not equally distributed in the genome [ 55 ].…”
Section: Fragmentation Patterns Of Cfdnamentioning
confidence: 99%
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“…A number of recent efforts have been taken to explore the biological properties and clinical utilities of urinary cell-free DNA molecules 1 , 2 . Single-stranded overhangs of a double-stranded DNA fragment (i.e.…”
Section: Introductionmentioning
confidence: 99%