Fluorescent Nucleoside Analogs: Probes for Investigating Nucleic Acid Structure and Function

Synthesis of 4-Aminophthalimide and 2,4-Diaminopyrimidine C-Nucleosides as Isosteric Fluorescent DNA Base Substitutes

(2013) Michael Weinberger et al.   JOURNAL OF ORGANIC CHEMISTRY

Synthesis and spectroscopic properties of fluorescent 5-benzimidazolyl-2′-deoxyuridines 5-fdU probes obtained from o-phenylenediamine derivatives

(2013) Pu Guo et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Triple-Stranded DNA Containing 8-Oxo-7,8-dihydro-2′-deoxyguanosine: Implication in the Design of Selective Aptamer Sensors for 8-Oxo-7,8-dihydroguanine

(2012) Qian Zhang et al.   ANALYTICAL CHEMISTRY

Direct Fluorescence Monitoring of DNA Base Excision Repair

(2012) Toshikazu Ono et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

DNA Polyfluorophores for Real-Time Multicolor Tracking of Dynamic Biological Systems

(2012) Shenliang Wang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Fluorescent nucleosides with ‘on–off’ switching function, pH-responsive fluorescent uridine derivatives

(2012) Yoshio Saito et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Enzymatic synthesis of 8-vinyl- and 8-styryl-2′-deoxyguanosine modified DNA—novel fluorescent molecular probes

(2012) Bastian Holzberger et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Naphthalene-based environmentally sensitive fluorescent 8-substituted 2′-deoxyadenosines: Application to DNA detection

(2012) Azusa Suzuki et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Synthesis and Photophysical Characterisation of a Fluorescent Nucleoside Analogue that Signals the Presence of an Abasic Site in RNA

(2012) Arun A. Tanpure et al.   CHEMBIOCHEM

DNA-Multichromophore Systems

(2012) Yin Nah Teo et al.   CHEMICAL REVIEWS

A Nucleobase-Discriminating Pyrrolo-dC Click Adduct Designed for DNA Fluorescence Mismatch Sensing

(2012) Xin Ming et al.   CHEMISTRY-A EUROPEAN JOURNAL

Quadracyclic Adenine: A Non-Perturbing Fluorescent Adenine Analogue

(2012) Anke Dierckx et al.   CHEMISTRY-A EUROPEAN JOURNAL

Modified 6-Aza Uridines: Highly Emissive pH-Sensitive Fluorescent Nucleosides

(2012) Renatus W. Sinkeldam et al.   CHEMPHYSCHEM

Molecular recognition and function of riboswitches

(2012) Alexander Serganov et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

GFP-like Fluorophores as DNA Labels for Studying DNA–Protein Interactions

(2012) Jan Riedl et al.   JOURNAL OF ORGANIC CHEMISTRY

Triazolyl Donor/Acceptor Chromophore Decorated Unnatural Nucleosides and Oligonucleotides with Duplex Stability Comparable to That of a Natural Adenine/Thymine Pair

(2012) Subhendu Sekhar Bag et al.   JOURNAL OF ORGANIC CHEMISTRY

Enzymatic incorporation of an azide-modified UTP analog into oligoribonucleotides for post-transcriptional chemical functionalization

(2012) Harita Rao et al.   Nature Protocols

A nucleic acid probe labeled with desmethyl thiazole orange: a new type of hybridization-sensitive fluorescent oligonucleotide for live-cell RNA imaging

(2012) Akimitsu Okamoto et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Design, Synthesis, and Spectroscopic Properties of Extended and Fused Pyrrolo-dC and Pyrrolo-C Analogs

(2012) Mary S. Noé et al.   ORGANIC LETTERS

2-Pyrenyl-DNA: Synthesis, Pairing, and Fluorescence Properties

(2012) Filip Wojciechowski et al.   ORGANIC LETTERS

Labelling of nucleosides and oligonucleotides by solvatochromic 4-aminophthalimide fluorophore for studying DNA–protein interactions

(2012) Jan Riedl et al.   Chemical Science

Novel Modifications in RNA

(2011) Kelly Phelps et al.   ACS Chemical Biology

Phenylpyrrolocytosine as an Unobtrusive Base Modification for Monitoring Activity and Cellular Trafficking of siRNA

(2011) Alexander S. Wahba et al.   ACS Chemical Biology

8-Vinyl-2′-deoxyguanosine as a Fluorescent 2′-Deoxyguanosine Mimic for Investigating DNA Hybridization and Topology

(2011) André Nadler et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Efficient microwave-assisted synthesis, antibacterial activity and high fluorescence of 5 benzimidazolyl-2′-deoxyuridines

(2011) Jamal Krim et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Design and Synthesis of Caged Fluorescent Nucleotides and Application to Live-cell RNA Imaging

(2011) Shuji Ikeda et al.   CHEMBIOCHEM

Structure-Function Relationships of Phenoxazine Nucleosides for Identification of Mismatches in Duplex DNA by Fluorescence Spectroscopy

(2011) Haraldur Gardarsson et al.   CHEMBIOCHEM

Homo-DNA templated chemistry and its application to nucleic acid sensing

(2011) Matthias Stoop et al.   CHEMICAL COMMUNICATIONS

Chemistry of nucleic acids: impacts in multiple fields

(2011) Omid Khakshoor et al.   CHEMICAL COMMUNICATIONS

Label-free fluorescence detection of the depurination activity of ribosome inactivating protein toxins

(2011) Arun A. Tanpure et al.   CHEMICAL COMMUNICATIONS

Monitoring i-motif transitions through the exciplex emission of a fluorescent probe incorporating two PyA units

(2011) Il Joon Lee et al.   CHEMICAL COMMUNICATIONS

Posttranscriptional chemical functionalization of azide-modified oligoribonucleotides by bioorthogonal click and Staudinger reactions

(2011) Harita Rao et al.   CHEMICAL COMMUNICATIONS

A Microenvironment-Sensitive Fluorescent Pyrimidine Ribonucleoside Analogue: Synthesis, Enzymatic Incorporation, and Fluorescence Detection of a DNA Abasic Site

(2011) Arun A. Tanpure et al.   CHEMISTRY-A EUROPEAN JOURNAL

4,4-Difluoro-4-bora-3a,4a-diaza-s-indacene as a Bright Fluorescent Label for DNA

(2011) Thomas Ehrenschwender et al.   JOURNAL OF ORGANIC CHEMISTRY

Differentiating between Fluorescence-Quenching Metal Ions with Polyfluorophore Sensors Built on a DNA Backbone

(2011) Samuel S. Tan et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Emissive RNA Alphabet

(2011) Dongwon Shin et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Characterization of photophysical and base-mimicking properties of a novel fluorescent adenine analogue in DNA

(2011) Anke Dierckx et al.   NUCLEIC ACIDS RESEARCH

Parallel-stranded DNA: Enhancing duplex stability by the ‘G-clamp’ and a pyrrolo-dC derivative

(2011) Xin Ming et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Synthesis, Photophysical Characterization, and Enzymatic Incorporation of a Microenvironment-Sensitive Fluorescent Uridine Analog

(2011) Maroti G. Pawar et al.   ORGANIC LETTERS

Mechanisms of RNA catalysis

(2011) D. M. J. Lilley   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Multispectral labeling of antibodies with polyfluorophores on a DNA backbone and application in cellular imaging

(2011) Jia Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA polyfluorophores as highly diverse chemosensors of toxic gases

(2011) Chi-Kin Koo et al.   Chemical Science

Examining the relationship between RNA function and motion using nuclear magnetic resonance

(2011) Michael F. Bardaro et al.   Wiley Interdisciplinary Reviews-RNA

RNA dynamics: perspectives from spin labels

(2011) Phuong Nguyen et al.   Wiley Interdisciplinary Reviews-RNA

Nucleic acid-based fluorescent probes and their analytical potential

(2010) Bernard Juskowiak   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Incorporation of the Fluorescent Ribonucleotide Analogue tCTP by T7 RNA Polymerase

(2010) Gudrun Stengel et al.   ANALYTICAL CHEMISTRY

Selective Detection of 5-Formyl-2′-deoxyuridine, an Oxidative Lesion of Thymidine, in DNA by a Fluorogenic Reagent

(2010) Wataru Hirose et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Single Ribosome Dynamics and the Mechanism of Translation

(2010) Colin Echeverría Aitken et al.   Annual Review of Biophysics

Chemical RNA Modifications for Studies of RNA Structure and Dynamics

(2010) Falk Wachowius et al.   CHEMBIOCHEM

Antibiotic selectivity for prokaryotic vs. eukaryotic decoding sites

(2010) Yun Xie et al.   CHEMICAL COMMUNICATIONS

Fluorescent Analogs of Biomolecular Building Blocks: Design, Properties, and Applications

(2010) Renatus W. Sinkeldam et al.   CHEMICAL REVIEWS

Solution Structure, Mechanism of Replication, and Optimization of an Unnatural Base Pair

(2010) Denis A. Malyshev et al.   CHEMISTRY-A EUROPEAN JOURNAL

The Effects of the 4-(4-Methylpiperazine)phenyl Group on Nucleosides and Oligonucleotides: Cellular Delivery, Detection, and Stability

(2010) Sun Min Park et al.   Chemistry-An Asian Journal

Emissive Nucleosides as Molecular Rotors

(2010) Renatus W. Sinkeldam et al.   CHEMPHYSCHEM

Cation-Mediated Energy Transfer in G-Quadruplexes Revealed by an Internal Fluorescent Probe

(2010) Anaëlle Dumas et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Fluorescent Ribonucleoside as a FRET Acceptor for Tryptophan in Native Proteins

(2010) Yun Xie et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Unique Fluorescent Base Analogue for the Expansion of the Genetic Alphabet

(2010) Michiko Kimoto et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Site-specific fluorescent probing of RNA molecules by unnatural base-pair transcription for local structural conformation analysis

(2010) Yasushi Hikida et al.   Nature Protocols

Fluorescent ribonucleoside analogues as probes for investigating RNA structure and function

(2010) Seergazhi G. Srivatsan et al.   PURE AND APPLIED CHEMISTRY

Fluorescent nucleic acid base analogues

(2010) L. Marcus Wilhelmsson   QUARTERLY REVIEWS OF BIOPHYSICS

DNA Hairpins Containing the Cytidine Analog Pyrrolo-dC: Structural, Thermodynamic, and Spectroscopic Studies

(2009) Xu Zhang et al.   BIOPHYSICAL JOURNAL

Fluorescence Quenching by Photoinduced Electron Transfer: A Reporter for Conformational Dynamics of Macromolecules

(2009) Sören Doose et al.   CHEMPHYSCHEM

FRET Enabled Real Time Detection of RNA-Small Molecule Binding

(2009) Yun Xie et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Nucleic Acid Base Analog FRET-Pair Facilitating Detailed Structural Measurements in Nucleic Acid Containing Systems

(2009) Karl Börjesson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The blessing and curse of RNA dynamics: past, present, and future

(2009) Nils G. Walter   METHODS

RNA folding dynamics by single-molecule fluorescence resonance energy transfer

(2009) Rui Zhao et al.   METHODS

A single-label phenylpyrrolocytidine provides a molecular beacon-like response reporting HIV-1 RT RNase H activity

(2009) Alexander S. Wahba et al.   NUCLEIC ACIDS RESEARCH

An Emissive C Analog Distinguishes between G, 8-oxoG, and T

(2009) Nicholas J. Greco et al.   ORGANIC LETTERS

A Highly Emissive Fluorescent Nucleoside that Signals the Activity of Toxic Ribosome-Inactivating Proteins

(2008) Seergazhi G. Srivatsan et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Structural Principles From Large RNAs

(2008) Stephen R. Holbrook   Annual Review of Biophysics

Electron transfer through a stable phenanthrenyl pair in DNA

(2008) Nikolay A. Grigorenko et al.   CHEMICAL COMMUNICATIONS

Single base interrogation by a fluorescent nucleotide: each of the four DNA bases identified by fluorescence spectroscopy

(2008) Pavol Cekan et al.   CHEMICAL COMMUNICATIONS

Novel strategies for the site-specific covalent labelling of nucleic acids

(2008) Samuel H. Weisbrod et al.   CHEMICAL COMMUNICATIONS

RNA in motion

(2008) Kathleen B Hall   CURRENT OPINION IN CHEMICAL BIOLOGY

Taking femtosecond snapshots of RNA conformational dynamics and complexity

(2008) Tianbing Xia   CURRENT OPINION IN CHEMICAL BIOLOGY

RNA dynamics: it is about time

(2008) Hashim M Al-Hashimi et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Detection of an abasic site in RNA with stem-loop DNA beacons: Application to an activity assay for Ricin Toxin A-Chain

(2008) Setu Roday et al.  

Comparative analysis of depurination catalyzed by ricin A-chain on synthetic 32mer and 25mer oligoribonucleotides mimicking the sarcin/ricin domain of the rat 28S rRNA and E. coli 23S rRNA

(2008) Qing-Qiao Tan et al.   JOURNAL OF BIOTECHNOLOGY

A highly fluorescent nucleoside analog based on thieno[3,4-d]pyrimidine senses mismatched pairing

(2008) Seergazhi G. Srivatsan et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Pyrrolo-C as a molecular probe for monitoring conformations of the tRNA 3' end

(2008) C.-M. Zhang et al.   RNA

Anthracene based base-discriminating fluorescent oligonucleotide probes for SNPs typing: Synthesis and photophysical properties

(2006) Yoshio Saito et al.   BIOORGANIC & MEDICINAL CHEMISTRY