Structure and Function of Noncanonical Nucleobases

An Integrative View of the Role of Oxidative Stress, Mitochondria and Insulin in Alzheimer's Disease

(2017) Paula I. Moreira et al.   JOURNAL OF ALZHEIMERS DISEASE

Base-Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome

(2012) Miao Yu et al.   CELL

Mitochondria as a Therapeutic Target in Alzheimers Disease and Diabetes

(2012) Paula Moreira et al.   CNS & Neurological Disorders-Drug Targets

The Arabidopsis Nucleotidyl Transferase HESO1 Uridylates Unmethylated Small RNAs to Trigger Their Degradation

(2012) Yuanyuan Zhao et al.   CURRENT BIOLOGY

RNA driving the epigenetic bus

(2012) John S Mattick   EMBO JOURNAL

Modular regulatory principles of large non-coding RNAs

(2012) Mitchell Guttman et al.   NATURE

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

(2012) Dan Dominissini et al.   NATURE

Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA

(2012) Liang Zhang et al.   Nature Chemical Biology

BC1-FMRP interaction is modulated by 2′-O-methylation: RNA-binding activity of the tudor domain and translational regulation at synapses

(2012) Caroline Lacoux et al.   NUCLEIC ACIDS RESEARCH

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA

(2012) Jeffrey E. Squires et al.   NUCLEIC ACIDS RESEARCH

Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution

(2012) M. J. Booth et al.   SCIENCE

Novel Modifications in RNA

(2011) Kelly Phelps et al.   ACS Chemical Biology

The Discovery of 5-Formylcytosine in Embryonic Stem Cell DNA

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

Oxidized Cytosine Metabolites Offer a Fresh Perspective for Active DNA Demethylation

(2011) Kathrin I. Ladwein et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Systems-Based Analysis of Modified tRNA Bases

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

On the specificity of antibiotics targeting the large ribosomal subunit

(2011) Daniel N. Wilson   Annals of the New York Academy of Sciences

Pyruvate Is the Source of the Two Carbons That Are Required for Formation of the Imidazoline Ring of 4-Demethylwyosine

(2011) Anthony P. Young et al.   BIOCHEMISTRY

ADARs: allies or enemies? The importance of A-to-I RNA editing in human disease: from cancer to HIV-1

(2011) Angela Gallo et al.   BIOLOGICAL REVIEWS

Thymine DNA Glycosylase Is Essential for Active DNA Demethylation by Linked Deamination-Base Excision Repair

(2011) Salvatore Cortellino et al.   CELL

Hydroxylation of 5-Methylcytosine by TET1 Promotes Active DNA Demethylation in the Adult Brain

(2011) Junjie U. Guo et al.   CELL

Burning off DNA Methylation: New Evidence for Oxygen-Dependent DNA Demethylation

(2011) Tomasz P. Jurkowski et al.   CHEMBIOCHEM

Inhibition of 2-oxoglutarate dependent oxygenases

(2011) Nathan R. Rose et al.   CHEMICAL SOCIETY REVIEWS

Chemistry and Structural Biology of DNA Damage and Biological Consequences

(2011) Michael P. Stone et al.   CHEMISTRY & BIODIVERSITY

Analysis of urinary nucleosides as potential tumor markers in human breast cancer by high performance liquid chromatography/electrospray ionization tandem mass spectrometry

(2011) Wei-Yi Hsu et al.   CLINICA CHIMICA ACTA

Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors

(2011) Shi-Yan Ng et al.   EMBO JOURNAL

Thymine DNA Glycosylase Can Rapidly Excise 5-Formylcytosine and 5-Carboxylcytosine

(2011) Atanu Maiti et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Deficit of tRNALys modification by Cdkal1 causes the development of type 2 diabetes in mice

(2011) Fan-Yan Wei et al.   JOURNAL OF CLINICAL INVESTIGATION

Mass Spectrometry-Based Quantification of Pseudouridine in RNA

(2011) Balasubrahmanyam Addepalli et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

lincRNAs act in the circuitry controlling pluripotency and differentiation

(2011) Mitchell Guttman et al.   NATURE

Targeted RNA sequencing reveals the deep complexity of the human transcriptome

(2011) Tim R Mercer et al.   NATURE BIOTECHNOLOGY

N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO

(2011) Guifang Jia et al.   Nature Chemical Biology

Discovery of epoxyqueuosine (oQ) reductase reveals parallels between halorespiration and tRNA modification

(2011) Z. D. Miles et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Retrograde nuclear import of tRNA precursors is required for modified base biogenesis in yeast

(2011) T. Ohira et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Biomarker analysis for prostate cancer diagnosis using LC–MS and CE–MS

(2011) Sanjeewa Gamagedara et al.   Bioanalysis

ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA

(2011) Erwin van den Born et al.   Nature Communications

RNA nucleotide methylation

(2011) Yuri Motorin et al.   Wiley Interdisciplinary Reviews-RNA

Oxidation Reactions of Cytosine DNA Components by Hydroxyl Radical and One-Electron Oxidants in Aerated Aqueous Solutions

(2010) J. Richard Wagner et al.   ACCOUNTS OF CHEMICAL RESEARCH

Quantification of the Sixth DNA Base Hydroxymethylcytosine in the Brain

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

The AlkB Domain of Mammalian ABH8 Catalyzes Hydroxylation of 5-Methoxycarbonylmethyluridine at the Wobble Position of tRNA

(2010) Ye Fu et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Unraveling the Structure of the Ribosome (Nobel Lecture)

(2010) V. Ramakrishnan   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

tRNA Stabilization by Modified Nucleotides

(2010) Yuri Motorin et al.   BIOCHEMISTRY

Modifications of Small RNAs and Their Associated Proteins

(2010) Young-Kook Kim et al.   CELL

Dynamic link of DNA demethylation, DNA strand breaks and repair in mouse zygotes

(2010) Mark Wossidlo et al.   EMBO JOURNAL

Hen1 is required for oocyte development and piRNA stability in zebrafish

(2010) Leonie M Kamminga et al.   EMBO JOURNAL

The highly conserved KEOPS/EKC complex is essential for a universal tRNA modification, t6A

(2010) Madhusudhan Srinivasan et al.   EMBO JOURNAL

tRNA biology charges to the front

(2010) E. M. Phizicky et al.   GENES & DEVELOPMENT

Identification of Eukaryotic and Prokaryotic Methylthiotransferase for Biosynthesis of 2-Methylthio-N6-threonylcarbamoyladenosine in tRNA

(2010) Simon Arragain et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Expanding Role of the Jumonji C Domain as an RNA Hydroxylase

(2010) Akiko Noma et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Human AlkB Homolog ABH8 Is a tRNA Methyltransferase Required for Wobble Uridine Modification and DNA Damage Survival

(2010) D. Fu et al.   MOLECULAR AND CELLULAR BIOLOGY

Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency

(2010) Christian Popp et al.   NATURE

Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea

(2010) Yoshiho Ikeuchi et al.   Nature Chemical Biology

Inosine cyanoethylation identifies A-to-I RNA editing sites in the human transcriptome

(2010) Masayuki Sakurai et al.   Nature Chemical Biology

Structural aspects of messenger RNA reading frame maintenance by the ribosome

(2010) Lasse B Jenner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Effect of pseudouridylation on the structure and activity of the catalytically essential P6.1 hairpin in human telomerase RNA

(2010) Nak-Kyoon Kim et al.   NUCLEIC ACIDS RESEARCH

The RNA modification database, RNAMDB: 2011 update

(2010) W. A. Cantara et al.   NUCLEIC ACIDS RESEARCH

Crystal structure of a novel JmjC-domain-containing protein, TYW5, involved in tRNA modification

(2010) Megumi Kato et al.   NUCLEIC ACIDS RESEARCH

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

(2010) Daniel Globisch et al.   PLoS One

Agmatidine, a modified cytidine in the anticodon of archaeal tRNAIle, base pairs with adenosine but not with guanosine

(2010) D. Mandal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spliceosomal snRNA modifications and their function

(2010) John Karijolich et al.   RNA Biology

Detection of RNA modifications

(2010) Stefanie Kellner et al.   RNA Biology

Genome-wide analysis of N1-methyl-adenosine modification in human tRNAs

(2010) M. Saikia et al.   RNA

Genome-Wide Reprogramming in the Mouse Germ Line Entails the Base Excision Repair Pathway

(2010) P. Hajkova et al.   SCIENCE

Molecular diversity through RNA editing: a balancing act

(2010) Sanaz Farajollahi et al.   TRENDS IN GENETICS

The genetics of obesity: FTO leads the way

(2010) Katherine A. Fawcett et al.   TRENDS IN GENETICS

Epigenetic architecture and miRNA: reciprocal regulators

(2010) Erik D Wiklund et al.   Epigenomics

A Quantitative Systems Approach Reveals Dynamic Control of tRNA Modifications during Cellular Stress

(2010) Clement T. Y. Chan et al.   PLoS Genetics

Parallel Isotope-Based Quantification of Modified tRNA Nucleosides

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

Regulation of mRNA cap methylation

(2009) Victoria H. Cowling   BIOCHEMICAL JOURNAL

The Deazapurine Biosynthetic Pathway Revealed: In Vitro Enzymatic Synthesis of PreQ0from Guanosine 5′-Triphosphate in Four Steps

(2009) Reid M. McCarty et al.   BIOCHEMISTRY

Queuosine modification of tRNA: its divergent role in cellular machinery

(2009) Manjula Vinayak et al.   BIOSCIENCE REPORTS

Deciphering synonymous codons in the three domains of life: Co-evolution with specific tRNA modification enzymes

(2009) Henri Grosjean et al.   FEBS LETTERS

Do all modifications benefit all tRNAs?

(2009) Eric M. Phizicky et al.   FEBS LETTERS

Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase

(2009) Kotaro Nakanishi et al.   NATURE

LC/MS analysis of cellular RNA reveals NAD-linked RNA

(2009) Y Grace Chen et al.   Nature Chemical Biology

Linking DNA methylation and histone modification: patterns and paradigms

(2009) Howard Cedar et al.   NATURE REVIEWS GENETICS

Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4†

(2009) Yoko Suzuki et al.   NUCLEIC ACIDS RESEARCH

The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNA

(2009) B. El Yacoubi et al.   NUCLEIC ACIDS RESEARCH

Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2

(2009) M. Umitsu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A chemical screen for biological small molecule-RNA conjugates reveals CoA-linked RNA

(2009) W. E. Kowtoniuk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of 8-methyladenosine as the modification catalyzed by the radical SAM methyltransferase Cfr that confers antibiotic resistance in bacteria

(2009) A. M. B. Giessing et al.   RNA

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

The Colorful History of Active DNA Demethylation

(2008) Steen K.T. Ooi et al.   CELL

An embarrassment of riches: the enzymology of RNA modification

(2008) Dirk Iwata-Reuyl   CURRENT OPINION IN CHEMICAL BIOLOGY

New gene variants alter type 2 diabetes risk predominantly through reduced beta-cell function

(2008) John RB Perry et al.   CURRENT OPINION IN CLINICAL NUTRITION AND METABOLIC CARE

tRNA's modifications bring order to gene expression

(2008) Estella M Gustilo et al.   CURRENT OPINION IN MICROBIOLOGY

Bringing order to translation: the contributions of transfer RNA anticodon-domain modifications

(2008) Paul F Agris   EMBO REPORTS

Oxidative demethylation of 3-methylthymine and 3-methyluracil in single-stranded DNA and RNA by mouse and human FTO

(2008) Guifang Jia et al.   FEBS LETTERS

Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation

(2008) M. E. Dinger et al.   GENOME RESEARCH

Epigenetic events in mammalian germ-cell development: reprogramming and beyond

(2008) Hiroyuki Sasaki et al.   NATURE REVIEWS GENETICS

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS

MODOMICS: a database of RNA modification pathways. 2008 update

(2008) A. Czerwoniec et al.   NUCLEIC ACIDS RESEARCH

Matrix-assisted laser desorption/ionization mass spectrometry screening for pseudouridine in mixtures of small RNAs by chemical derivatization, RNase digestion and signature products

(2008) Anita Durairaj et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

A decade of surprises for tRNA nuclear–cytoplasmic dynamics

(2008) Anita K. Hopper et al.   TRENDS IN CELL BIOLOGY