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List of works by Peter Dedon

2'-O methylation of internal adenosine by flavivirus NS5 methyltransferase

scientific article

28S rRNA is inducibly pseudouridylated by the mTOR pathway translational control in CHO cell cultures

scientific article

5'-(2-phosphoryl-1,4-dioxobutane) as a product of 5'-oxidation of deoxyribose in DNA: elimination as trans-1,4-dioxo-2-butene and approaches to analysis

scientific article published in November 2004

7-Deazaguanine modifications protect phage DNA from host restriction systems

scientific article published on 29 November 2019

A Platform for Discovery and Quantification of Modified Ribonucleosides in RNA: Application to Stress-Induced Reprogramming of tRNA Modifications

scientific article published on 17 July 2015

A human tRNA methyltransferase 9-like protein prevents tumour growth by regulating LIN9 and HIF1-α

scientific journal article

A multidimensional platform for the purification of non-coding RNA species

scientific article published on August 2013

A quantitative systems approach reveals dynamic control of tRNA modifications during cellular stress

scientific article

A simplified formaldehyde fixation and immunoprecipitation technique for studying protein-DNA interactions

scientific article published on 01 August 1991

A system for exposing molecules and cells to biologically relevant and accurately controlled steady-state concentrations of nitric oxide and oxygen

scientific article

A system of RNA modifications and biased codon use controls cellular stress response at the level of translation

scientific article published on 27 January 2014

Absence of 2'-deoxyoxanosine and presence of abasic sites in DNA exposed to nitric oxide at controlled physiological concentrations

scientific article published in September 2003

AlkB homologue 2-mediated repair of ethenoadenine lesions in mammalian DNA.

scientific article

AlkB influences the chloroacetaldehyde-induced mutation spectra and toxicity in the pSP189 supF shuttle vector

scientific article published on 20 July 2007

An automated Fpg-based FADU method for the detection of oxidative DNA lesions and screening of antioxidants

scientific article

An improved method for large-scale preparation of negatively and positively supercoiled plasmid DNA.

scientific article

Analysis of 3'-phosphoglycolaldehyde residues in oxidized DNA by gas chromatography/negative chemical ionization/mass spectrometry

scientific article published in December 2003

Antibody production relies on the tRNA inosine wobble modification to meet biased codon demand

scientific article published on 11 January 2024

Aristolochic Acids as Persistent Soil Pollutants: Determination of Risk for Human Exposure and Nephropathy from Plant Uptake

article

Biological role of glutathione in nitric oxide-induced toxicity in cell culture and animal models

scientific article published on 8 August 2005

Biologically relevant oxidants and terminology, classification and nomenclature of oxidatively generated damage to nucleobases and 2-deoxyribose in nucleic acids.

scientific article published on 22 February 2012

Calicheamicin-Mediated DNA Damage in a Reconstituted Nucleosome Is Not Affected by Histone Acetylation: The Role of Drug Structure in the Target Recognition Process†

scientific article published on 01 October 1997

Characterization of the reactions of platinum antitumor agents with biologic and nonbiologic sulfur-containing nucleophiles

scientific article published in June 1987

Chemical and biological evidence for base propenals as the major source of the endogenous M1dG adduct in cellular DNA.

scientific article published on 5 May 2005

Chemical and cytokine features of innate immunity characterize serum and tissue profiles in inflammatory bowel disease

scientific article published on 10 June 2013

Chemistry meets biology in colitis-associated carcinogenesis

scientific article

Comparative analysis of four oxidized guanine lesions from reactions of DNA with peroxynitrite, singlet oxygen, and γ-radiation

scientific article published on 24 January 2013

Comparative tRNA sequencing and RNA mass spectrometry for surveying tRNA modifications

scientific article published on 08 June 2020

Continuous elimination of oxidized nucleotides is necessary to prevent rapid onset of cellular senescence

scholarly article

Crystal structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD from Pseudomonas aeruginosa

scientific article published on 09 August 2019

Cu(II)/H2O2-Induced DNA Damage Is Enhanced by Packaging of DNA as a Nucleosome

scientific article published on 01 April 2001

Cytosine Methylation Enhances DNA Damage Produced by Groove Binding and Intercalating Enediynes: Studies with Esperamicins A1 and C†

scientific article published on 01 December 1997

DNA Damage Produced by Enediynes in the Human Phosphoglycerate Kinase Gene in Vivo: Esperamicin A1 as a Nucleosome Footprinting Agent†

article

DNA Damage in Deoxynucleosides and Oligonucleotides Treated with Peroxynitrite

scientific article published on 01 June 1999

DNA Phosphorothioate Modifications Are Widely Distributed in the Human Microbiome

scientific article published on 12 August 2020

DNA methylation impacts gene expression and ensures hypoxic survival of Mycobacterium tuberculosis

scientific article

DNA phosphorothioation is widespread and quantized in bacterial genomes.

scientific article

DNA sequence context as a determinant of the quantity and chemistry of guanine oxidation produced by hydroxyl radicals and one-electron oxidants

scientific article published on 23 October 2008

Defects in purine nucleotide metabolism lead to substantial incorporation of xanthine and hypoxanthine into DNA and RNA

scientific article

Delineation of the Chemical Pathways Underlying Nitric Oxide-Induced Homologous Recombination in Mammalian Cells

scientific article published on 01 March 2005

Development of Methods Derived from Iodine-Induced Specific Cleavage for Identification and Quantitation of DNA Phosphorothioate Modifications

scientific article published on 28 October 2020

Development of enzymatic probes of oxidative and nitrosative DNA damage caused by reactive nitrogen species

scientific article published on 7 November 2005

Differential Effects of DNA Supercoiling on Radical-Mediated DNA Strand Breaks ⬇️

scientific article published on October 1, 1997

Differential oxidation of deoxyribose in DNA by gamma and alpha-particle radiation

scientific article published in June 2005

Diverse cell stresses induce unique patterns of tRNA up- and down-regulation: tRNA-seq for quantifying changes in tRNA copy number

scientific article

Dosimetry of N⁶-formyllysine adducts following [¹³C²H₂]-formaldehyde exposures in rats

scientific article published on 10 October 2013

Effects of DNA structure on oxopropenylation by the endogenous mutagens malondialdehyde and base propenal

scientific article

Effects of peroxynitrite dose and dose rate on DNA damage and mutation in the supF shuttle vector

scientific article published in January 2005

Epigenetic competition reveals density-dependent regulation and target site plasticity of phosphorothioate epigenetics in bacteria

scientific article published on 09 June 2020

Epitranscriptomic regulation of the response to the air pollutant naphthalene in mouse lungs: from the perspectives of specialized translation and tolerance linked to the writer ALKBH8

scientific article published on 07 August 2019

Erratum: Corrigendum: Paradoxical hotspots for guanine oxidation by a chemical mediator of inflammation

scholarly article published in Nature Chemical Biology

Exploring the virulence gene interactome with CRISPR/dCas9 in the human malaria parasite

scientific article published on 01 August 2020

Formation of 1,4-dioxo-2-butene-derived adducts of 2'-deoxyadenosine and 2'-deoxycytidine in oxidized DNA.

scientific article published on August 2006

Formation of the 1,N2-glyoxal adduct of deoxyguanosine by phosphoglycolaldehyde, a product of 3'-deoxyribose oxidation in DNA.

scientific article

Functional Characterization of the m

scientific article

GC/MS methods to quantify the 2-deoxypentos-4-ulose and 3'-phosphoglycolate pathways of 4' oxidation of 2-deoxyribose in DNA: application to DNA damage produced by gamma radiation and bleomycin

scientific article published on 19 October 2007

Genomic mapping of phosphorothioates reveals partial modification of short consensus sequences

scientific article

Gut microbes define liver cancer risk in mice exposed to chemical and viral transgenic hepatocarcinogens.

scientific article published on January 2010

Highly Predictive Reprogramming of tRNA Modifications Is Linked to Selective Expression of Codon-Biased Genes

scientific article published on 13 April 2015

Human AlkB homolog ABH8 Is a tRNA methyltransferase required for wobble uridine modification and DNA damage survival

scientific article

Identification and codon reading properties of 5-cyanomethyl uridine, a new modified nucleoside found in the anticodon wobble position of mutant haloarchaeal isoleucine tRNAs.

scientific article published on 16 December 2013

Identification of N6,N6-Dimethyladenosine in Transfer RNA from Mycobacterium bovis Bacille Calmette-Guérin

scientific article published on 21 June 2011

In situ analysis of 8-oxo-7,8-dihydro-2'-deoxyguanosine oxidation reveals sequence- and agent-specific damage spectra

scientific article

Increased levels of inosine in a mouse model of inflammation

scientific article published on 04 April 2013

Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response

scientific article

Indirect mutagenesis by oxidative DNA damage: formation of the pyrimidopurinone adduct of deoxyguanosine by base propenal

scientific article

Induction of functional human macrophages from bone marrow promonocytes by M-CSF in humanized mice

scientific article published on 9 August 2013

Infection-induced colitis in mice causes dynamic and tissue-specific changes in stress response and DNA damage leading to colon cancer

scientific article

Integrated molecular analysis indicates undetectable change in DNA damage in mice after continuous irradiation at ~ 400-fold natural background radiation

scientific article

Irp2 regulates insulin production through iron-mediated Cdkal1-catalyzed tRNA modification

scientific article published on 15 January 2020

Kinetic analysis of intracellular concentrations of reactive nitrogen species

scientific article

Lipid peroxidation dominates the chemistry of DNA adduct formation in a mouse model of inflammation

scientific article

Loss of Elongator- and KEOPS-Dependent tRNA Modifications Leads to Severe Growth Phenotypes and Protein Aggregation in Yeast

scientific article published on 18 February 2020

Mechanisms of oxidation of guanine in DNA by carbonate radical anion, a decomposition product of nitrosoperoxycarbonate

scientific article

Modulation of Enediyne-Induced DNA Damage by Chromatin Structures in Transcriptionally Active Genes†

article

More than an adaptor molecule: the emerging role of tRNA in cell signaling and disease

scientific article published on November 2014

Mycobacterium tuberculosis Transfer RNA Induces IL-12p70 via Synergistic Activation of Pattern Recognition Receptors within a Cell Network.

scientific article published on 2 April 2018

N-formylation of lysine in histone proteins as a secondary modification arising from oxidative DNA damage

scientific article published on 2 January 2007

New insights into calicheamicin-DNA interactions derived from a model nucleosome system

article

One-electron oxidation of a pyrenyl photosensitizer covalently attached to DNA and competition between its further oxidation and DNA hole injection

scientific article

Opportunities to integrate new approaches in genetic toxicology: an ILSI-HESI workshop report

scientific article

Oxidation of guanine in G, GG, and GGG sequence contexts by aromatic pyrenyl radical cations and carbonate radical anions: relationship between kinetics and distribution of alkali-labile lesions

scientific article

Paradoxical hotspots for guanine oxidation by a chemical mediator of inflammation

scientific article published on 4 June 2006

Pathological phenotypes and in vivo DNA cleavage by unrestrained activity of a phosphorothioate-based restriction system in Salmonella

scientific article published on 23 July 2014

Peroxynitrite-induced DNA damage in the supF gene: correlation with the mutational spectrum

scientific article

Phase I Clinical and Pharmacokinetic Study of Diethyldithiocarbamate as a Chemoprotector From Toxic Effects of Cisplatin

article

Phosphorothioation of DNA in bacteria by dnd genes.

scientific article published on 14 October 2007

Photosensitized oxidative DNA damage: from hole injection to chemical product formation and strand cleavage

scientific article

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

scientific article

Quantification of DNA strand breaks and abasic sites by oxime derivatization and accelerator mass spectrometry: application to gamma-radiation and peroxynitrite

scientific article published in August 2005

Quantification of cellular poly(ADP-ribosyl)ation by stable isotope dilution mass spectrometry reveals tissue- and drug-dependent stress response dynamics

scientific article published on 13 May 2013

Quantification of the 2-deoxyribonolactone and nucleoside 5'-aldehyde products of 2-deoxyribose oxidation in DNA and cells by isotope-dilution gas chromatography mass spectrometry: differential effects of gamma-radiation and Fe2+-EDTA

scientific article

Quantitation of 8-Oxoguanine and Strand Breaks Produced by Four Oxidizing Agents

scientific article published on 01 April 1997

Quantitative analysis of histone modifications: formaldehyde is a source of pathological n(6)-formyllysine that is refractory to histone deacetylases

scientific article

Quantitative analysis of ribonucleoside modifications in tRNA by HPLC-coupled mass spectrometry

scientific article (publication date: April 2014)

Quantitative mapping of the cellular small RNA landscape with AQRNA-seq

scientific article published on 15 April 2021

Reaction of 2'-deoxyribonucleosides with cis- and trans-1,4-dioxo-2-butene

scientific article published in October 2004

Reaction of cis- and trans-2-Butene-1,4-dial with 2'-deoxycytidine to form stable oxadiazabicyclooctaimine adducts

scientific article published in March 2001

Reactive nitrogen species in the chemical biology of inflammation

scientific article published on March 2004

Reactive species and DNA damage in chronic inflammation: reconciling chemical mechanisms and biological fates

scientific article published in May 2011

Reciprocal regulation of TORC signaling and tRNA modifications by Elongator enforces nutrient-dependent cell fate

scientific article published on 19 June 2019

Recommendations for standardized description of and nomenclature concerning oxidatively damaged nucleobases in DNA.

scientific article published on April 2010

Relatively small increases in the steady-state levels of nucleobase deamination products in DNA from human TK6 cells exposed to toxic levels of nitric oxide

scientific article published on January 2006

Removal by human apurinic/apyrimidinic endonuclease 1 (Ape 1) and Escherichia coli exonuclease III of 3'-phosphoglycolates from DNA treated with neocarzinostatin, calicheamicin, and gamma-radiation

scientific article

Reprogramming of tRNA modifications controls the oxidative stress response by codon-biased translation of proteins

scientific article

Resistance to nitric oxide-induced necrosis in heme oxygenase-1 overexpressing pulmonary epithelial cells associated with decreased lipid peroxidation

scientific journal article

Sequence-dependent variation in the reactivity of 8-Oxo-7,8-dihydro-2'-deoxyguanosine toward oxidation

scientific article published on 2 December 2011

Solvent exposure associated with single abasic sites alters the base sequence dependence of oxidation of guanine in DNA in GG sequence contexts

scientific article

SspABCD-SspE is a phosphorothioation-sensing bacterial defence system with broad anti-phage activities

scientific article published on 06 April 2020

Stability of 2'-deoxyxanthosine in DNA.

scientific article

Supercoiling affects the accessibility of glutathione to DNA-bound molecules: positive supercoiling inhibits calicheamicin-induced DNA damage.

scientific article published on January 1998

Surveying the damage: the challenges of developing nucleic acid biomarkers of inflammation

scientific article published on 09 July 2008

The Benzoxazolinate of C-1027 Confers Intercalative DNA Binding

scientific article published in 1995

The DNA-damage signature in Saccharomyces cerevisiae is associated with single-strand breaks in DNA.

scientific article

The Deoxyfucose-Anthranilate of Esperamicin A1 Confers Intercalative DNA Binding and Causes a Switch in the Chemistry of Bistranded DNA Lesions

article published in 1994

The Versatile Roles of the tRNA Epitranscriptome during Cellular Responses to Toxic Exposures and Environmental Stress

article

The absence of the Queuosine tRNA modification leads to pleiotropic phenotypes revealing perturbations of metal and oxidative stress homeostasis in <i>Escherichia coli</i> K12

scientific article published in 2022

The biological and metabolic fates of endogenous DNA damage products

scientific article

The chemical toxicology of 2-deoxyribose oxidation in DNA.

scientific article published on 04 December 2007

The epitranscriptomic writer ALKBH8 drives tolerance and protects mouse lungs from the environmental pollutant naphthalene

scientific article published on 17 April 2020

Thiazolidin-5-imine Formation as a Catalyst-Free Bioorthogonal Reaction for Protein and Live Cell Labeling

scientific article published on 05 December 2018

Thienopyrimidinone Derivatives That Inhibit Bacterial tRNA (Guanine37-N1)-Methyltransferase (TrmD) by Restructuring the Active Site with a Tyrosine-Flipping Mechanism

scientific article published on 29 August 2019

Thiols alter the partitioning of calicheamicin-induced deoxyribose 4'-oxidation reactions in the absence of DNA radical repair

scientific article published in May 2001

Threshold effects of nitric oxide-induced toxicity and cellular responses in wild-type and p53-null human lymphoblastoid cells

scientific article

Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications

scientific article

XRCC1 and base excision repair balance in response to nitric oxide

scientific article published on 29 October 2011

m(6)A RNA modification controls cell fate transition in mammalian embryonic stem cells

scientific article

tRNA epitranscriptomics and biased codon are linked to proteome expression in

article

tRNA modifications regulate translation during cellular stress

scientific article

tRNA-modifying enzyme mutations induce codon-specific mistranslation and protein aggregation in yeast

scientific article published on 06 September 2020

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