Development of highly fluorogenic styrene probes for visualizing RNA in live cells

MJ Kim, Y Li, JA Junge, NK Kim, SE Fraser… - ACS Chemical …, 2023 - ACS Publications
Styrene dyes are useful imaging probes and fluorescent sensors due to their strong
fluorogenic responses to environmental changes or binding macromolecules. Previously …

Sequence-specific post-synthetic oligonucleotide labeling for single-molecule fluorescence applications

D Egloff, IA Oleinich, M Zhao, SLB Konig… - ACS chemical …, 2016 - ACS Publications
The sequence-specific fluorescence labeling of nucleic acids is a prerequisite for various
methods including single-molecule Förster resonance energy transfer (smFRET) for the …

Improved Hydration-Sensitive Dual-Fluorescence Labels For Monitoring Peptide− Nucleic Acid Interactions

OM Zamotaiev, VY Postupalenko… - Bioconjugate …, 2011 - ACS Publications
Environmentally sensitive labels constitute a new, attractive tool for monitoring biomolecular
interactions. 3-Hydroxychromone derivatives are of particular interest because they undergo …

Fluorescent indicator displacement assay for ligand− RNA interactions

J Zhang, S Umemoto, K Nakatani - Journal of the American …, 2010 - ACS Publications
Since the discovery of the RNA functions modulating gene expression, functional RNA has
become an attractive drug target. Ligand− RNA interactions have been studied by covalent …

Complete enzymatic digestion of double-stranded RNA to nucleosides enables accurate quantification of dsRNA

SR Strezsak, PJ Beuning, NJ Skizim - Analytical Methods, 2021 - pubs.rsc.org
The rapid growth of research focusing on RNA, especially for RNA interference applications,
has created a need for a robust method that can accurately determine the concentration of …

3'Terminal end‐labeling of structured RNA by Klenow DNA polymerase

MN Mwangi, NN Baird - The FASEB Journal, 2022 - Wiley Online Library
RNA labeling is a key step in studying RNA localization, folding, and structural dynamics
using fluorescence based assays. Current methods of fluorophore attachment to long (> 100 …

Double FIT hybridization probes–towards enhancing brightness, turn-on and specificity of RNA detection

S Schöllkopf, A Knoll, A Homer, O Seitz - Chemical Science, 2023 - pubs.rsc.org
Efficient fluorogenic hybridization probes combine high brightness and specificity of
fluorescence signaling with large turn-on of fluorescence. Herein, we present an approach …

Kinetic analysis of highly effective triplex formation between a small molecule–peptide nucleic acid conjugate probe and the influenza A virus RNA promoter region at …

CU Okeke, H Miura, Y Sato, S Nishizawa - Organic & Biomolecular …, 2023 - pubs.rsc.org
In order to overcome the pH limitations of triplex-forming peptide nucleic acid (PNA) in
binding to double-stranded RNA (dsRNA), we have recently proposed a new design of …

RNA “Traffic lights”: An analytical tool to monitor siRNA integrity

C Holzhauser, R Liebl, A Goepferich… - ACS chemical …, 2013 - ACS Publications
The combination of thiazole orange and thiazole red as an internal energy transfer-based
fluorophore pair in oligonucleotides provides an outstanding analytical tool to follow …

Synthesis and application of a 19 F-labeled fluorescent nucleoside as a dual-mode probe for i-motif DNAs

WA Wee, JH Yum, S Hirashima, H Sugiyama… - RSC Chemical …, 2021 - pubs.rsc.org
Because of their stable orientations and their minimal interference with native DNA
interactions and folding, emissive isomorphic nucleoside analogues are versatile tools for …