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 …

Microfluidic-based solid phase extraction of cell free DNA

CDM Campos, SST Gamage, JM Jackson, MA Witek… - Lab on a Chip, 2018 - pubs.rsc.org
Cell-free DNA (cfDNA) is a liquid biopsy marker that can carry signatures (ie, mutations)
associated with certain pathological conditions. Therefore, the extraction of cfDNA from a …

[HTML][HTML] Recent development of nucleic acid nanosensors to detect sequence-specific binding interactions: From metal ions, small molecules to proteins and …

XT Zheng, YN Tan - Sensors International, 2020 - Elsevier
DNA carries important genetic instructions and plays vital roles in regulating biological
activities in living cells. Proteins such as transcription factors binds to DNA to regulate the …

[HTML][HTML] A comprehensive biophysical analysis of the effect of DNA binding drugs on protamine-induced DNA condensation

S Gupta, N Tiwari, M Munde - Scientific reports, 2019 - nature.com
DNA condensation is a ubiquitous phenomenon in biology, yet the physical basis for it has
remained elusive. Here, we have explored the mechanism of DNA condensation through the …

Ionic mononuclear [Fe] and heterodinuclear [Fe, Ru] bis (diphenylphosphino) alkane complexes: Synthesis, spectroscopy, DFT structures, cytotoxicity, and …

M Odachowski, R Neven, G Perversi, D Romano… - Journal of Inorganic …, 2023 - Elsevier
Abstract Iron (II) and Ru (II) half-sandwich compounds encompass some promising pre-
clinical anticancer agents whose efficacy may be tuned by structural modification of the …

[HTML][HTML] Optical Polymorphism of Liquid–Crystalline Dispersions of DNA at High Concentrations of Crowding Polymer

VN Morozov, MA Klimovich, AV Shibaeva… - International Journal of …, 2023 - mdpi.com
Optically active liquid–crystalline dispersions (LCD) of nucleic acids, obtained by polymer-
and salt-induced (psi-) condensation, eg, by mixing of aqueous saline solutions of low …

Force-dependent persistence length of DNA–intercalator complexes measured in single molecule stretching experiments

RF Bazoni, CHM Lima, EB Ramos, MS Rocha - Soft Matter, 2015 - pubs.rsc.org
By using optical tweezers with an adjustable trap stiffness, we have performed systematic
single molecule stretching experiments with two types of DNA–intercalator complexes, in …

Cooperative effects on the compaction of DNA fragments by the nucleoid protein H-NS and the crowding agent PEG probed by magnetic tweezers

M Cristofalo, CA Marrano, D Salerno, R Corti… - … et Biophysica Acta (BBA …, 2020 - Elsevier
Background DNA bridging promoted by the H-NS protein, combined with the compaction
induced by cellular crowding, plays a major role in the structuring of the E. coli genome …

[HTML][HTML] Platinum-based drugs and DNA interactions studied by single-molecule and bulk measurements

D Salerno, GL Beretta, G Zanchetta, S Brioschi… - Biophysical …, 2016 - cell.com
Platinum-containing molecules are widely used as anticancer drugs. These molecules exert
cytotoxic effects by binding to DNA through various mechanisms. The binding between DNA …

Dodecyltrimethylammonium bromide surfactant effects on DNA: Unraveling the competition between electrostatic and hydrophobic interactions

EF Silva, UMS Andrade, KM de Oliveira, A Teixeira… - Physical Review E, 2020 - APS
We present a new study on the interaction of the DNA molecule with the surfactant
dodecyltrimethylammonium bromide (DTAB), performed mainly with optical tweezers. Single …