Measuring excess heat capacities of deoxyribonucleic acid (DNA) folding at the single-molecule level

DA Nicholson, B Jia, DJ Nesbitt - The Journal of Physical …, 2021 - ACS Publications
Measurements of the thermodynamic properties of biomolecular folding (Δ G°, Δ H°, Δ S°,
etc.) provide a wealth of information on the folding process and have long played a central …

Single-molecule DNA hybridisation studied by using a modified DNA sequencer: a comparison with surface plasmon resonance data

J Sobek, H Rehrauer, S Schauer… - … and applications in …, 2016 - iopscience.iop.org
Current methods for the determination of molecular interactions are widely used in the
analytical sciences. To identify new methods, we investigated as a model system the …

Super-Resolution Imaging of Competitive Unlabeled DNA Hybridization Reveals the Influence of Fluorescent Labels on Duplex Formation and Dissociation Kinetics

EM Peterson, EJ Reece, W Li… - The Journal of Physical …, 2019 - ACS Publications
Single-molecule fluorescence imaging is a powerful method to measure reversible reaction
kinetics, allowing one to monitor the bound state of individual probe molecules with …

Characterization, mechanisms and applications in the chemistry of cyanine dyes: A review

HA Shindy - European Journal of Molecular Biotechnology, 2016 - elibrary.ru
In this paper review, some of the important characterizations and mechanisms in the
chemistry of cyanine dyes were explained. This include topics like absorption spectral …

Dependence of fluorescence quenching of CY3 oligonucleotide conjugates on the oxidation potential of the stacking base pair

J Sobek, R Schlapbach - Molecules, 2020 - mdpi.com
To understand the complex fluorescence properties of astraphloxin (CY3)-labelled
oligonucleotides, it is necessary to take into account the redox properties of the …

The non-specific binding of fluorescent-labeled MiRNAs on cell surface by hydrophobic interaction

T Lu, Z Lin, J Ren, P Yao, X Wang, Z Wang, Q Zhang - PloS one, 2016 - journals.plos.org
Background MicroRNAs are small noncoding RNAs about 22 nt long that play key roles in
almost all biological processes and diseases. The fluorescent labeling and lipofection are …

Rapid visual identification of PCR amplified nucleic acids by centrifugal gel separation: Potential use for molecular point-of-care tests

SH Hwang, DE Kim, JH Im, SJ Kang, DH Lee… - Biosensors and …, 2016 - Elsevier
Recently, nucleic acid amplification and detection techniques have progressed based on
advances in in microfluidics, microelectronics, and optical systems. Nucleic acids …

Cy5/BHQ dye–quencher pairs in fluorogenic qPCR probes: effects of charge and hydrophobicity

VM Farzan, IO Aparin, OA Veselova, AT Podkolzin… - Analytical …, 2016 - pubs.rsc.org
For the first time we used a CuAAC click reaction for the synthesis of cyanine labeled qPCR
probes. We performed the comparison of dyes and quenchers (Cy5 vs. disulfo–Cy5 and …

Design and development of a two-color emissive FRET pair based on a photostable fluorescent deoxyuridine donor presenting a mega-Stokes shift

NPF Barthes, K Gavvala, D Bonhomme… - The Journal of …, 2016 - ACS Publications
We report the synthesis and site-specific incorporation in oligodeoxynucleotides (ODNs) of
an emissive deoxyuridine analog electronically conjugated on its C5-position with a 3 …

Synthesis of carboxy ATTO 647N using redox cycling for xanthone access

JL Bachman, CI Pavlich, AJ Boley, EM Marcotte… - Organic …, 2019 - ACS Publications
A synthesis of the carbopyronine dye Carboxy ATTO 647N from simple materials is reported.
This route proceeds in 11 forward steps from 3-bromoaniline with the key xanthone …