5-Formylcytosine alters the structure of the DNA double helix

EA Raiber, P Murat, DY Chirgadze, D Beraldi… - Nature structural & …, 2015 - nature.com
Abstract The modified base 5-formylcytosine (5fC) was recently identified in mammalian
DNA and might be considered to be the'seventh'base of the genome. This nucleotide has …

Single-base resolution analysis of active DNA demethylation using methylase-assisted bisulfite sequencing

H Wu, X Wu, L Shen, Y Zhang - Nature biotechnology, 2014 - nature.com
Active DNA demethylation in mammals involves TET-mediated iterative oxidation of 5-
methylcytosine (5mC)/5-hydroxymethylcytosine (5hmC) and subsequent excision repair of …

Mapping and elucidating the function of modified bases in DNA

EA Raiber, R Hardisty, P van Delft… - Nature Reviews …, 2017 - nature.com
Chemically modified bases exist naturally in genomic DNA. Research into these bases has
been invigorated by the discovery of several modified bases in the mammalian genome, in …

Analysis of RNA modifications by second-and third-generation deep sequencing: 2020 update

Y Motorin, V Marchand - Genes, 2021 - mdpi.com
The precise mapping and quantification of the numerous RNA modifications that are present
in tRNAs, rRNAs, ncRNAs/miRNAs, and mRNAs remain a major challenge and a top priority …

Third‐generation sequencing of epigenetic DNA

B Searle, M Müller, T Carell, A Kellett - Angewandte Chemie, 2023 - Wiley Online Library
The discovery of epigenetic bases has revolutionised the understanding of disease and
development. Among the most studied epigenetic marks are cytosines covalently modified at …

The physics of epigenetics

R Cortini, M Barbi, BR Caré, C Lavelle, A Lesne… - Reviews of Modern …, 2016 - APS
In higher organisms, all cells share the same genome, but every cell expresses only a
limited and specific set of genes that defines the cell type. During cell division, not only the …

5-Formylcytosine yields DNA–protein cross-links in nucleosome core particles

F Li, Y Zhang, J Bai, MM Greenberg, Z Xi… - Journal of the American …, 2017 - ACS Publications
In situ generation of 5-formylcytosine (5fC) in nucleosome core particles (NCPs) reveals that
5fC leads to essential DNA–protein cross-links (DPCs). Mechanistic studies using chemical …

Single-base resolution analysis of 5-formyl and 5-carboxyl cytosine reveals promoter DNA methylation dynamics

F Neri, D Incarnato, A Krepelova, S Rapelli, F Anselmi… - Cell reports, 2015 - cell.com
Ten eleven translocation (Tet) proteins oxidize 5-methylcytosine (5mC) to 5-
hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC). 5fC …

Nanopores discriminate among five C5-cytosine variants in DNA

ZL Wescoe, J Schreiber, M Akeson - Journal of the American …, 2014 - ACS Publications
Individual DNA molecules can be read at single nucleotide precision using nanopores
coupled to processive enzymes. Discrimination among the four canonical bases has been …

TET family proteins: oxidation activity, interacting molecules, and functions in diseases

X Lu, BS Zhao, C He - Chemical reviews, 2015 - ACS Publications
DNA modification is one of the most widely studied epigenetic modifications in high
eukaryotic systems. Modified DNA bases impact gene regulation beyond the primary DNA …