Isotope-dilution mass spectrometry for exact quantification of noncanonical DNA nucleosides

A reassessment of DNA-immunoprecipitation-based genomic profiling

(2018) Antonio Lentini et al.   NATURE METHODS

5-Formyl- and 5-Carboxydeoxycytidines Do Not Cause Accumulation of Harmful Repair Intermediates in Stem Cells

(2017) René Rahimoff et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Oxidation of phosphorothioate DNA modifications leads to lethal genomic instability

(2017) Stefanie Kellner et al.   Nature Chemical Biology

5-Formylcytosine to cytosine conversion by C–C bond cleavage in vivo

(2017) Katharina Iwan et al.   Nature Chemical Biology

Tumour hypoxia causes DNA hypermethylation by reducing TET activity

(2016) Bernard Thienpont et al.   NATURE

DNA methylation on N6-adenine in mammalian embryonic stem cells

(2016) Tao P. Wu et al.   NATURE

De novo DNA methylation drives 5hmC accumulation in mouse zygotes

(2016) Rachel Amouroux et al.   NATURE CELL BIOLOGY

Quantification of 5-methyl-2'-deoxycytidine in the DNA

(2015) Małgorzata Giel-Pietraszuk et al.   ACTA BIOCHIMICA POLONICA

Mass spectrometry for the assessment of the occurrence and biological consequences of DNA adducts

(2015) Shuo Liu et al.   CHEMICAL SOCIETY REVIEWS

5-Formylcytosine can be a stable DNA modification in mammals

(2015) Martin Bachman et al.   Nature Chemical Biology

Identification of methylated deoxyadenosines in vertebrates reveals diversity in DNA modifications

(2015) Magdalena J Koziol et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CATH FunFHMMer web server: protein functional annotations using functional family assignments

(2015) Sayoni Das et al.   NUCLEIC ACIDS RESEARCH

Identification of methylated deoxyadenosines in vertebrates reveals diversity in DNA modifications

(2015) Magdalena J Koziol et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Determination of DNA adenine methylation in genomes of mammals and plants by liquid chromatography/mass spectrometry

(2015) Wei Huang et al.   RSC Advances

DNA demethylation, Tet proteins and 5-hydroxymethylcytosine in epigenetic reprogramming: An emerging complex story

(2014) Peter W.S. Hill et al.   GENOMICS

Rapid neurogenesis through transcriptional activation in human stem cells

(2014) V. Busskamp et al.   Molecular Systems Biology

Tet oxidizes thymine to 5-hydroxymethyluracil in mouse embryonic stem cell DNA

(2014) Toni Pfaffeneder et al.   Nature Chemical Biology

5-Formylcytosine alters the structure of the DNA double helix

(2014) Eun-Ang Raiber et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Absolute and relative quantification of RNA modifications via biosynthetic isotopomers

(2014) Stefanie Kellner et al.   NUCLEIC ACIDS RESEARCH

Synthesis of a DNA Promoter Segment Containing All Four Epigenetic Nucleosides: 5-Methyl-, 5-Hydroxymethyl-, 5-Formyl-, and 5-Carboxy-2′-Deoxycytidine

(2013) Arne S. Schröder et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Genome-wide Profiling of 5-Formylcytosine Reveals Its Roles in Epigenetic Priming

(2013) Chun-Xiao Song et al.   CELL

Deamination, Oxidation, and C–C Bond Cleavage Reactivity of 5-Hydroxymethylcytosine, 5-Formylcytosine, and 5-Carboxycytosine

(2013) Stefan Schiesser et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Definitions of terms relating to mass spectrometry (IUPAC Recommendations 2013)

(2013) Kermit K. Murray et al.   PURE AND APPLIED CHEMISTRY

5-formylcytosine and 5-carboxylcytosine reduce the rate and substrate specificity of RNA polymerase II transcription

(2012) Matthew W Kellinger et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Simultaneous quantification of 12 different nucleotides and nucleosides released from renal epithelium and in human urine samples using ion-pair reversed-phase HPLC

(2012) Alberto Contreras-Sanz et al.   Purinergic Signalling

Analysis of global DNA methylation by hydrophilic interaction ultra high-pressure liquid chromatography tandem mass spectrometry

(2011) Jun-jie Zhang et al.   ANALYTICAL BIOCHEMISTRY

The Discovery of 5-Formylcytosine in Embryonic Stem Cell DNA

(2011) Toni Pfaffeneder et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Systems-Based Analysis of Modified tRNA Bases

(2011) Daniel Globisch et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

LC-MS based quantification of 2′-ribosylated nucleosides Ar(p) and Gr(p) in tRNA

(2011) David Pearson et al.   CHEMICAL COMMUNICATIONS

Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation

(2011) H. Wu et al.   GENES & DEVELOPMENT

Global identification of transfer RNAs by liquid chromatography–mass spectrometry (LC–MS)

(2011) Collin Wetzel et al.   Journal of Proteomics

Uncovering the role of 5-hydroxymethylcytosine in the epigenome

(2011) Miguel R. Branco et al.   NATURE REVIEWS GENETICS

Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA

(2011) Y.-F. He et al.   SCIENCE

Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine

(2011) S. Ito et al.   SCIENCE

Quantification of the Sixth DNA Base Hydroxymethylcytosine in the Brain

(2010) Martin Münzel et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2

(2010) Myunggon Ko et al.   NATURE

Tissue Distribution of 5-Hydroxymethylcytosine and Search for Active Demethylation Intermediates

(2010) Daniel Globisch et al.   PLoS One

Parallel Isotope-Based Quantification of Modified tRNA Nucleosides

(2009) Tobias Brückl et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Acquired mutations in TET2 are common in myelodysplastic syndromes

(2009) Saskia M C Langemeijer et al.   NATURE GENETICS

Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1

(2009) M. Tahiliani et al.   SCIENCE

The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain

(2009) S. Kriaucionis et al.   SCIENCE

Quantification of DNA damage products resulting from deamination, oxidation and reaction with products of lipid peroxidation by liquid chromatography isotope dilution tandem mass spectrometry

(2008) Koli Taghizadeh et al.   Nature Protocols