@inbook{a964080a78984a8f98f826e0184f5ccd,
title = "In Vivo Chemical Probing for G-Quadruplex Formation",
abstract = "While DNA inside the cells is predominantly canonical right-handed double helix, guanine-rich DNAs have potential to fold into four-stranded structures that contain stacks of G-quartets (G4 DNA quadruplex). Genome sequencing has revealed G4 sequences tend to localize at the gene control regions, especially in the promoters of oncogenes. A growing body of evidence indicates that G4 DNA quadruplexes might have important regulatory roles in genome function, highlighting the need for techniques to detect genome-wide folding of DNA into this structure. Potassium permanganate in vivo treatment of cells results in oxidizing of nucleotides in single-stranded DNA regions that accompany G4 DNA quadruplexes formation, providing an excellent probe for the conformational state of DNA inside the living cells. Here, we describe a permanganate-based methodology to detect G4 DNA quadruplex, genome-wide. This methodology combined with high-throughput sequencing provides a snapshot of the DNA conformation over the whole genome in vivo.",
keywords = "Chromatin, DNA quadruplex, G4 DNA, High-throughput genomics, Non-B DNA, Potassium permanganate",
author = "Fedor Kouzine and Damian Wojtowicz and Arito Yamane and Rafael Casellas and Przytycka, {Teresa M.} and Levens, {David L.}",
note = "Publisher Copyright: {\textcopyright} Springer Science+Business Media, LLC, part of Springer Nature 2019.",
year = "2019",
doi = "10.1007/978-1-4939-9666-7_23",
language = "English (US)",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "369--382",
booktitle = "Methods in Molecular Biology",
}