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

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

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Article in STAR protocols, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed

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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

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3 · Its place in the literature

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0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

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PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Biyuan MiaoInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China. Electronic address: miaobiyuan666@163.com.

Xinlei HuangInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China.

Hui ChenInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China.

Wang LiInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China.

Qingsong ZenInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China.

Huaxi LiInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China.

Jia GuFaculty of Health and Wellness, City University of Macau, Macau 999078, China.

Pingping XuDepartment of Colorectal Surgery, Zhongshan Hospital, Fudan University, Shanghai 200433, China. Electronic address: xu.pingping@zs-hospital.sh.cn.

Shaogui WanInstitute of Genomics and Precision Medicine, Gannan Medical University, Ganzhou, Jiangxi Province 341000, China; Faculty of Health and Wellness, City University of Macau, Macau 999078, China. Electronic address: wansg@gmu.edu.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

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.

Indexed as

Biotechnology and bioengineeringCancerGenomics

Identifiers

PMID42826104

DOI10.1016/j.xpro.2026.104865

PMCPMC13659461

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.