DNA manipulation, sorting, and mapping in nanofluidic systems

SL Levy, HG Craighead - Chemical Society Reviews, 2010 - pubs.rsc.org
Fluidic systems with nanometre length scales enable sensitive analysis of DNA molecules.
Nanofluidic systems have been used to probe conformational, dynamic, and entropic …

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 …

The impact of DNA intercalators on DNA and DNA-processing enzymes elucidated through force-dependent binding kinetics

AS Biebricher, I Heller, RFH Roijmans… - Nature …, 2015 - nature.com
DNA intercalators are widely used as fluorescent probes to visualize DNA and DNA
transactions in vivo and in vitro. It is well known that they perturb DNA structure and stability …

Mechanical and structural properties of YOYO-1 complexed DNA

K Günther, M Mertig, R Seidel - Nucleic acids research, 2010 - academic.oup.com
YOYO-1 is a fluorescent dye widely used for probing the statistical–mechanical properties of
DNA. However, currently contradicting data exist how YOYO-1 binding alters the DNA …

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 …

DNA electrophoresis in microfabricated devices

KD Dorfman - Reviews of Modern Physics, 2010 - APS
Picking up at the conclusion of Viovy's review of the physics of gel electrophoresis [J.-L.
Viovy, Rev. Mod. Phys. 72, 813 (2000) 10.1103/RevModPhys. 72.813], this review …

Conformational analysis of single DNA molecules undergoing entropically induced motion in nanochannels

JT Mannion, CH Reccius, JD Cross, HG Craighead - Biophysical journal, 2006 - cell.com
We have used the interface between a nanochannel and a microchannel as a tool for
applying controlled forces on a DNA molecule. A molecule, with a radius of gyration larger …

Is DNA a good model polymer?

DR Tree, A Muralidhar, PS Doyle, KD Dorfman - Macromolecules, 2013 - ACS Publications
The details surrounding the crossover from wormlike-specific to universal polymeric
behavior has been the subject of debate and confusion even for the simple case of a dilute …

Nanochannel confinement: DNA stretch approaching full contour length

Y Kim, KS Kim, KL Kounovsky, R Chang, GY Jung… - Lab on a Chip, 2011 - pubs.rsc.org
Fully stretched DNA molecules are becoming a fundamental component of new systems for
comprehensive genome analysis. Among a number of approaches for elongating DNA …

Mechanisms of small molecule–DNA interactions probed by single-molecule force spectroscopy

AA Almaqwashi, T Paramanathan… - Nucleic acids …, 2016 - academic.oup.com
There is a wide range of applications for non-covalent DNA binding ligands, and
optimization of such interactions requires detailed understanding of the binding …