Biophysical characterization of DNA binding from single molecule force measurements

KR Chaurasiya, T Paramanathan, MJ McCauley… - Physics of life …, 2010 - Elsevier
Single molecule force spectroscopy is a powerful method that uses the mechanical
properties of DNA to explore DNA interactions. Here we describe how DNA stretching …

Extracting physical chemistry from mechanics: a new approach to investigate DNA interactions with drugs and proteins in single molecule experiments

MS Rocha - Integrative Biology, 2015 - academic.oup.com
In this review we focus on the idea of establishing connections between the mechanical
properties of DNA–ligand complexes and the physical chemistry of DNA–ligand interactions …

Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold

PJ Kolbeck, W Vanderlinden… - Nucleic acids …, 2021 - academic.oup.com
SYBR Gold is a commonly used and particularly bright fluorescent DNA stain, however, its
chemical structure is unknown and its binding mode to DNA remains controversial. Here, we …

[HTML][HTML] Molecular mechanisms and kinetics between DNA and DNA binding ligands

A Sischka, K Toensing, R Eckel, SD Wilking… - Biophysical journal, 2005 - cell.com
Mechanical properties of single double-stranded DNA (dsDNA) in the presence of different
binding ligands were analyzed in optical-tweezers experiments with subpiconewton force …

Impedance sensing of DNA binding drugs using gold substrates modified with gold nanoparticles

CZ Li, Y Liu, JHT Luong - Analytical chemistry, 2005 - ACS Publications
Interfacial interactions between immobilized DNA probes and DNA-specific sequence
binding drugs were investigated using impedance spectroscopy toward the development of …

[图书][B] Nanotechnology in biology and medicine: methods, devices, and applications

T Vo-Dinh - 2007 - taylorfrancis.com
The combination of biology and nanotechnology has led to a new generation of
nanodevices that make it possible to characterize the chemical, mechanical, and other …

Torsional sensing of small-molecule binding using magnetic tweezers

J Lipfert, S Klijnhout, NH Dekker - Nucleic acids research, 2010 - academic.oup.com
DNA-binding small molecules are widespread in the cell and heavily used in biological
applications. Here, we use magnetic tweezers, which control the force and torque applied to …

Exploring the interaction of ruthenium (II) polypyridyl complexes with DNA using single-molecule techniques

A Mihailovic, I Vladescu, M McCauley, E Ly… - Langmuir, 2006 - ACS Publications
Here we explore DNA binding by a family of ruthenium (II) polypyridyl complexes using an
atomic force microscope (AFM) and optical tweezers. We demonstrate using AFM that Ru …

Characterizing the interaction between DNA and GelRed fluorescent stain

FAP Crisafuli, EB Ramos, MS Rocha - European Biophysics Journal, 2015 - Springer
We have performed single-molecule stretching and dynamic light-scattering (DLS)
experiments to characterize the interaction between the DNA molecule and the fluorescent …

Mapping the Phase Diagram of Single DNA Molecule Force-Induced Melting<? format?> in the Presence of Ethidium

ID Vladescu, MJ McCauley, I Rouzina, MC Williams - Physical review letters, 2005 - APS
When a single DNA molecule is stretched beyond its normal contour length, a force-induced
melting transition is observed. Ethidium binding increases the DNA contour length …