Influence of major-groove chemical modifications of DNA on transcription by bacterial RNA polymerases

Fluorescence Quenching in Oligonucleotides Containing 7-Substituted 7-Deazaguanine Bases Prepared by the Nicking Enzyme Amplification Reaction

(2015) Petra Ménová et al.   BIOCONJUGATE CHEMISTRY

Base-resolution maps of 5-formylcytosine and 5-carboxylcytosine reveal genome-wide DNA demethylation dynamics

(2015) Xingyu Lu et al.   CELL RESEARCH

Polymerase Synthesis and Restriction Enzyme Cleavage of DNA Containing 7-Substituted 7-Deazaguanine Nucleobases

(2015) Michaela Mačková et al.   CHEMBIOCHEM

DNA methylation in bacteria: from the methyl group to the methylome

(2015) María A Sánchez-Romero et al.   CURRENT OPINION IN MICROBIOLOGY

E. coli RNA Polymerase Determinants of Open Complex Lifetime and Structure

(2015) Emily F. Ruff et al.   JOURNAL OF MOLECULAR BIOLOGY

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble

(2015) Yuhong Zuo et al.   MOLECULAR CELL

Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex

(2015) Lanfeng Wang et al.   NATURE

5-Formylcytosine can be a stable DNA modification in mammals

(2015) Martin Bachman et al.   Nature Chemical Biology

Quantitative measurement of transcriptional inhibition and mutagenesis induced by site-specifically incorporated DNA lesions in vitro and in vivo

(2015) Changjun You et al.   Nature Protocols

Transcriptional inhibition and mutagenesis induced by N-nitroso compound-derived carboxymethylated thymidine adducts in DNA

(2015) Changjun You et al.   NUCLEIC ACIDS RESEARCH

Structure of a bacterial RNA polymerase holoenzyme open promoter complex

(2015) Brian Bae et al.   eLife

Polymerase Synthesis of Photocaged DNA Resistant against Cleavage by Restriction Endonucleases

(2014) Zuzana Vaníková et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Polymerase Synthesis of DNAs Bearing Vinyl Groups in the Major Groove and their Cleavage by Restriction Endonucleases

(2014) Michaela Mačková et al.   CHEMBIOCHEM

Synthesis of Base-Modified 2′-Deoxyribonucleoside Triphosphates and Their Use in Enzymatic Synthesis of Modified DNA for Applications in Bioanalysis and Chemical Biology

(2014) Michal Hocek   JOURNAL OF ORGANIC CHEMISTRY

Direct Decarboxylation of 5-Carboxylcytosine by DNA C5- Methyltransferases

(2014) Zita Liutkevičiu̅tė et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

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

Characterization of HelD, an interacting partner of RNA polymerase from Bacillus subtilis

(2014) Jana Wiedermannová 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

Nucleobase Protection Strategy for Gene Cloning and Expression

(2013) Pavel Kielkowski et al.   CHEMBIOCHEM

Structural insights into how 5-hydroxymethylation influences transcription factor binding

(2013) Lukas Lercher et al.   CHEMICAL COMMUNICATIONS

The   Subunit of RNA Polymerase Is Required for Rapid Changes in Gene Expression and Competitive Fitness of the Cell

(2013) A. Rabatinova et al.   JOURNAL OF BACTERIOLOGY

Functional Analysis of the Protein Veg, Which Stimulates Biofilm Formation in Bacillus subtilis

(2013) Y. Lei et al.   JOURNAL OF BACTERIOLOGY

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

Compositional and structural analysis of selected chromosomal domains from Saccharomyces cerevisiae

(2013) Stephan Hamperl et al.   NUCLEIC ACIDS RESEARCH

Potential functional roles of DNA demethylation intermediates

(2013) Chun-Xiao Song et al.   TRENDS IN BIOCHEMICAL SCIENCES

Site-specific functionalization of RNA molecules by an unnatural base pair transcription system via click chemistry

(2012) Takumi Ishizuka et al.   CHEMICAL COMMUNICATIONS

Nucleic acid modifications with epigenetic significance

(2012) Ye Fu et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Nucleoside Triphosphates — Building Blocks for the Modification of Nucleic Acids

(2012) Marcel Hollenstein   MOLECULES

Transient and Switchable (Triethylsilyl)ethynyl Protection of DNA against Cleavage by Restriction Endonucleases

(2011) Pavel Kielkowski et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

5-Hydroxymethylcytosine, the Sixth Base of the Genome

(2011) Martin Münzel et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Lock and Key to Transcription: σ-DNA Interaction

(2011) Xin Liu et al.   CELL

Structural Basis for Promoter −10 Element Recognition by the Bacterial RNA Polymerase σ Subunit

(2011) Andrey Feklistov et al.   CELL

Cleavage of Functionalized DNA Containing 5-Modified Pyrimidines by Type II Restriction Endonucleases

(2011) Hana Macíčková-Cahová et al.   CHEMBIOCHEM

8-Oxo-7,8-dihydroguanine in DNA does not constitute a barrier to transcription, but is converted into transcription-blocking damage by OGG1

(2011) Nataliya Kitsera et al.   NUCLEIC ACIDS RESEARCH

Rapid changes in gene expression: DNA determinants of promoter regulation by the concentration of the transcription initiating NTP in Bacillus subtilis

(2011) Luděk Sojka et al.   NUCLEIC ACIDS RESEARCH

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

(2011) S. Ito et al.   SCIENCE

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

Molecular Evolution of Multisubunit RNA Polymerases: Structural Analysis

(2009) William J. Lane et al.   JOURNAL OF MOLECULAR BIOLOGY

Molecular Evolution of Multisubunit RNA Polymerases: Sequence Analysis

(2009) William J. Lane et al.   JOURNAL OF MOLECULAR BIOLOGY

Transcription of an Expanded Genetic Alphabet

(2009) Young Jun Seo et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Cleavage of adenine-modified functionalized DNA by type II restriction endonucleases

(2009) Hana Macíčková-Cahová et al.   NUCLEIC ACIDS RESEARCH

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 identity of the transcription +1 position is crucial for changes in gene expression in response to amino acid starvation inBacillus subtilis

(2008) Libor Krásný et al.   MOLECULAR MICROBIOLOGY

Cross-coupling reactions of nucleoside triphosphates followed by polymerase incorporation. Construction and applications of base-functionalized nucleic acids

(2008) Michal Hocek et al.   ORGANIC & BIOMOLECULAR CHEMISTRY