biostudies-literatureUnknown12(4)Lv W<h4>Background</h4>Extrachromosomal circular deoxyribonucleic acid (eccDNA) is evolving as a valuable biomarker, while little is known about its presence in urine.<h4>Methods</h4>Here, we report the discovery and analysis of urinary cell-free eccDNAs (ucf-eccDNAs) in healthy controls and patients with advanced chronic kidney disease (CKD) by Circle-Seq.<h4>Results</h4>Millions of unique ucf-eccDNAs were identified and comprehensively characterised. The ucf-eccDNAs are GC-rich. Most ucf-eccDNAs are less than 1000 bp and are enriched in four pronounced peaks at 207, 358, 553 and 732 bp. Analysis of the genomic distribution of ucf-eccDNAs shows that eccDNAs are found on all chromosomes but enriched on chromosomes 17, 19 and 20 with a high density of protein-coding genes, CpG islands, short inClinical and translational medicinee817https://www.ebi.ac.uk/biostudies/studies/S-EPMC9042798biostudies-literatureCircle-Seq reveals genomic and disease-specific hallmarks in urinary cell-free extrachromosomal circular DNAs.PMC9042798Han PLv WBolund LQu KLiu XWang QZhang CWang ZPan XYang HLi HHe FJin XYin TXing XZeng YZheng TRegenberg BLi YZhang XHenriksen RAFeng WLuo YLiu CLin LXu ZfalseCircle-Seq reveals genomic and disease-specific hallmarks in urinary cell-free extrachromosomal circular DNAs.<h4>Background</h4>Extrachromosomal circular deoxyribonucleic acid (eccDNA) is evolving as a valuable biomarker, while little is known about its presence in urine.<h4>Methods</h4>Here, we report the discovery and analysis of urinary cell-free eccDNAs (ucf-eccDNAs) in healthy controls and patients with advanced chronic kidney disease (CKD) by Circle-Seq.<h4>Results</h4>Millions of unique ucf-eccDNAs were identified and comprehensively characterised. The ucf-eccDNAs are GC-rich. Most ucf-eccDNAs are less than 1000 bp and are enriched in four pronounced peaks at 207, 358, 553 and 732 bp. Analysis of the genomic distribution of ucf-eccDNAs shows that eccDNAs are found on all chromosomes but enriched on chromosomes 17, 19 and 20 with a high density of protein-coding genes, CpG islands, short in2022-01-01T00:00:00Z2022 Apr2025-04-05T13:23:25.25Z2025-04-05T13:23:25.25ZS-EPMC90427983547429610.1002/ctm2.817