Protocol for rolling circle amplification-based nanopore sequencing of eccDNA from cell and plasma samples.

Authors

Biyuan Miao, Xinlei Huang, Hui Chen, Wang Li, Qingsong Zen, Huaxi Li, Jia Gu, Pingping Xu, Shaogui Wan

Published in

STAR protocols. Volume 7. Issue 4. Pages 104865. Oct 02, 2026. Epub Oct 02, 2026.

Abstract

Extrachromosomal circular DNAs (eccDNAs) can drive copy number variation and genomic rearrangements and act as mobile regulators of gene expression. Here, we detail a protocol for eccDNA identification from cell and plasma samples. We describe steps for sample preprocessing with circular DNA enrichment, rolling-circle amplification and debranching, library preparation and sequencing, along with quality control tailored to the key steps. For complete details on the use and execution of this protocol, please refer to Li et al.¹.

PMID:
42826104
Bibliographic data and abstract were imported from PubMed on 03 Oct 2026.

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