Far-red fluorescent probes for canonical and non-canonical nucleic acid structures: current progress and future implications

YV Suseela, N Narayanaswamy, S Pratihar… - Chemical Society …, 2018 - pubs.rsc.org
The structural diversity and functional relevance of nucleic acids (NAs), mainly
deoxyribonucleic acid (DNA) and ribonucleic acid (RNA), are indispensable for almost all …

Modeling the absorption lineshape of embedded systems from molecular dynamics: A tutorial review

D Loco, L Cupellini - International Journal of Quantum …, 2019 - Wiley Online Library
In this tutorial review, we focus on a multiscale method to compute the electronic absorption
line shape of molecular dyes embedded in a biological environment. To treat the coupling of …

The modeling of the absorption lineshape for embedded molecules through a polarizable QM/MM approach

D Loco, S Jurinovich, L Cupellini, MFSJ Menger… - Photochemical & …, 2018 - Springer
We present a computational strategy to simulate the absorption lineshape of a molecule
embedded in a complex environment by using a polarizable QM/MM approach. This strategy …

A new structure–activity relationship for cyanine dyes to improve photostability and fluorescence properties for live cell imaging

C Schwechheimer, F Rönicke, U Schepers… - Chemical …, 2018 - pubs.rsc.org
A new set of cyanine-indole dyes was synthesized, characterized by optical and cytotoxic
properties and subsequently applied for live cell imaging. Furthermore, these dyes were …

Fluorogen-activating proteins: next-generation fluorescence probes for biological research

E Gallo - Bioconjugate Chemistry, 2019 - ACS Publications
Since their discovery, fluorescent probes have found widespread use in biological research.
Over time, multiple next-generation probes increased the fluorescence catalog by offering …

Tricationic asymmetric monomeric monomethine cyanine dyes with chlorine and trifluoromethyl functionality–Fluorogenic nucleic acids probes

MI Kandinska, DV Cheshmedzhieva… - Journal of Molecular …, 2021 - Elsevier
The nucleic acids staining ability of a series asymmetric monomeric monomethine cyanine
dyes prepared by simple and reliable synthetic procedure is demonstrated. The dyes show …

LUCS (Light-Up Cell System), a universal high throughput assay for homeostasis evaluation in live cells

S Derick, C Gironde, P Perio, K Reybier, F Nepveu… - Scientific reports, 2017 - nature.com
Observations of fluorescent cyanine dye behavior under illumination at 500 nm lead to a
novel concept in cell biology allowing the development of a new live cell assay called LUCS …

Photo‐isomerization of the Cyanine Dye Alexa‐Fluor 647 (AF‐647) in the Context of dSTORM Super‐Resolution Microscopy

JKG Karlsson, A Laude, MJ Hall… - Chemistry–A European …, 2019 - Wiley Online Library
Cyanine dyes, as used in super‐resolution fluorescence microscopy, undergo light‐induced
“blinking”, enabling localization of fluorophores with spatial resolution beyond the optical …

Non-cytotoxic photostable monomethine cyanine platforms: Combined paradigm of nucleic acid staining and in vivo imaging

A Kurutos, T Ilic-Tomic, FS Kamounah… - … of Photochemistry and …, 2020 - Elsevier
Cyanine based chemosensing platforms have successfully been employed over the past
couple of decades in various fields of biomolecular sciences. Still a substantial number of …

Theoretical Modeling of Absorption and Fluorescent Characteristics of Cyanine Dyes

S Ilieva, M Kandinska, A Vasilev, D Cheshmedzhieva - Photochem, 2022 - mdpi.com
The rational design of cyanine dyes for the fine-tuning of their photophysical properties
undoubtedly requires theoretical considerations for understanding and predicting their …