Circle-Seq: Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells

Publikation: Bidrag til bog/antologi/rapport › Bidrag til bog/antologi › Forskning › fagfællebedømt

Standard

Circle-Seq : Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells. / Møller, Henrik Devitt.

DNA Electrophoresis: Methods and Protocols. red. / Katsuhiro Hanada. Humana Press, 2020. s. 165-181 (Methods in Molecular Biology, Bind 2119).

Publikation: Bidrag til bog/antologi/rapport › Bidrag til bog/antologi › Forskning › fagfællebedømt

Harvard

Møller, HD 2020, Circle-Seq: Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells. i K Hanada (red.), DNA Electrophoresis: Methods and Protocols. Humana Press, Methods in Molecular Biology, bind 2119, s. 165-181. https://doi.org/10.1007/978-1-0716-0323-9_15

APA

Møller, H. D. (2020). Circle-Seq: Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells. I K. Hanada (red.), DNA Electrophoresis: Methods and Protocols (s. 165-181). Humana Press. Methods in Molecular Biology Bind 2119 https://doi.org/10.1007/978-1-0716-0323-9_15

Vancouver

Møller HD. Circle-Seq: Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells. I Hanada K, red., DNA Electrophoresis: Methods and Protocols. Humana Press. 2020. s. 165-181. (Methods in Molecular Biology, Bind 2119). https://doi.org/10.1007/978-1-0716-0323-9_15

Author

Møller, Henrik Devitt. / Circle-Seq : Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells. DNA Electrophoresis: Methods and Protocols. red. / Katsuhiro Hanada. Humana Press, 2020. s. 165-181 (Methods in Molecular Biology, Bind 2119).

Bibtex

@inbook{e843ea0fe5a541d9b1cfbf720ed6ad1a,
title = "Circle-Seq: Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells",
abstract = "Chromosome-derived extrachromosomal circular DNA elements (eccDNAs) are detected in all eukaryotes examined so far. Here I describe the Circle-Seq protocol, applicable for physical enrichment of eccDNAs of a broad size range, combined with sequence confirmation of circular structures.Briefly, by concise alkaline treatment and gentle gravity flow-through an ion-exchange column, eccDNAs are enriched in the eluate fraction. EccDNAs are enzymatically isolated by extensive Plasmid-Safe DNase digestion of linear chromosomes and further enriched by φ29 rolling circle amplification. By means of high throughput sequencing of amplified eccDNA and custom eccDNA mapping software, around ten-thousand unique eccDNA types could be detected at nucleotide resolution in a million human muscle nuclei by this method.",
keywords = "Circle-Seq, Circular DNA purification, DNA circle, Double minutes, eccDNA, Episomes, Extrachromosomal",
author = "M{\o}ller, {Henrik Devitt}",
year = "2020",
doi = "10.1007/978-1-0716-0323-9_15",
language = "English",
isbn = " 978-1-0716-0322-2",
series = "Methods in Molecular Biology",
publisher = "Humana Press",
pages = "165--181",
editor = "Katsuhiro Hanada",
booktitle = "DNA Electrophoresis",
address = "United States",

}

RIS

TY - CHAP

T1 - Circle-Seq

T2 - Isolation and Sequencing of Chromosome-Derived Circular DNA Elements in Cells

AU - Møller, Henrik Devitt

PY - 2020

Y1 - 2020

N2 - Chromosome-derived extrachromosomal circular DNA elements (eccDNAs) are detected in all eukaryotes examined so far. Here I describe the Circle-Seq protocol, applicable for physical enrichment of eccDNAs of a broad size range, combined with sequence confirmation of circular structures.Briefly, by concise alkaline treatment and gentle gravity flow-through an ion-exchange column, eccDNAs are enriched in the eluate fraction. EccDNAs are enzymatically isolated by extensive Plasmid-Safe DNase digestion of linear chromosomes and further enriched by φ29 rolling circle amplification. By means of high throughput sequencing of amplified eccDNA and custom eccDNA mapping software, around ten-thousand unique eccDNA types could be detected at nucleotide resolution in a million human muscle nuclei by this method.

AB - Chromosome-derived extrachromosomal circular DNA elements (eccDNAs) are detected in all eukaryotes examined so far. Here I describe the Circle-Seq protocol, applicable for physical enrichment of eccDNAs of a broad size range, combined with sequence confirmation of circular structures.Briefly, by concise alkaline treatment and gentle gravity flow-through an ion-exchange column, eccDNAs are enriched in the eluate fraction. EccDNAs are enzymatically isolated by extensive Plasmid-Safe DNase digestion of linear chromosomes and further enriched by φ29 rolling circle amplification. By means of high throughput sequencing of amplified eccDNA and custom eccDNA mapping software, around ten-thousand unique eccDNA types could be detected at nucleotide resolution in a million human muscle nuclei by this method.

KW - Circle-Seq

KW - Circular DNA purification

KW - DNA circle

KW - Double minutes

KW - eccDNA

KW - Episomes

KW - Extrachromosomal

U2 - 10.1007/978-1-0716-0323-9_15

DO - 10.1007/978-1-0716-0323-9_15

M3 - Book chapter

C2 - 31989524

AN - SCOPUS:85078358056

SN - 978-1-0716-0322-2

T3 - Methods in Molecular Biology

SP - 165

EP - 181

BT - DNA Electrophoresis

A2 - Hanada, Katsuhiro

PB - Humana Press

ER -

ID: 235588304