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![]() | Olga DudkoProfessor of Physics, University of California San Diego Verified email at physics.ucsd.edu Cited by 4294 |
Intrinsic rates and activation free energies from single-molecule pulling experiments
We present a unified framework for extracting kinetic information from single-molecule
pulling experiments at constant force or constant pulling speed. Our procedure provides�…
pulling experiments at constant force or constant pulling speed. Our procedure provides�…
Theory, analysis, and interpretation of single-molecule force spectroscopy experiments
Dynamic force spectroscopy probes the kinetic and thermodynamic properties of single
molecules and molecular assemblies. Here, we propose a simple procedure to extract�…
molecules and molecular assemblies. Here, we propose a simple procedure to extract�…
Beyond the conventional description of dynamic force spectroscopy of adhesion bonds
Dynamic force spectroscopy of single molecules is described by a model that predicts a
distribution of rupture forces, the corresponding mean rupture force, and variance, which are�…
distribution of rupture forces, the corresponding mean rupture force, and variance, which are�…
First-passage processes in the genome
Many essential processes in biology share a common fundamental step—establishing
physical contact between distant segments of DNA. How fast this step is accomplished sets�…
physical contact between distant segments of DNA. How fast this step is accomplished sets�…
[HTML][HTML] Extracting kinetics from single-molecule force spectroscopy: nanopore unzipping of DNA hairpins
Single-molecule force experiments provide powerful new tools to explore biomolecular
interactions. Here, we describe a systematic procedure for extracting kinetic information from�…
interactions. Here, we describe a systematic procedure for extracting kinetic information from�…
[HTML][HTML] Global analysis of X-chromosome dosage compensation
V Gupta, M Parisi, D Sturgill, R Nuttall, M Doctolero…�- Journal of biology, 2006 - Springer
Background Drosophila melanogaster females have two X chromosomes and two autosome
sets (XX; AA), while males have a single X chromosome and two autosome sets (X; AA)�…
sets (XX; AA), while males have a single X chromosome and two autosome sets (X; AA)�…
[HTML][HTML] 3D trajectories adopted by coding and regulatory DNA elements: first-passage times for genomic interactions
During B lymphocyte development, immunoglobulin heavy-chain variable (VH), diversity
(DH), and joining (JH) segments assemble to generate a diverse antigen receptor repertoire�…
(DH), and joining (JH) segments assemble to generate a diverse antigen receptor repertoire�…
Pulling direction as a reaction coordinate for the mechanical unfolding of single molecules
The folding and unfolding kinetics of single molecules, such as proteins or nucleic acids, can
be explored by mechanical pulling experiments. Determining intrinsic kinetic information, at�…
be explored by mechanical pulling experiments. Determining intrinsic kinetic information, at�…
Decoding the mechanical fingerprints of biomolecules
OK Dudko�- Quarterly reviews of biophysics, 2016 - cambridge.org
The capacity of biological macromolecules to act as exceedingly sophisticated and highly
efficient cellular machines–switches, assembly factors, pumps, or motors–is realized through�…
efficient cellular machines–switches, assembly factors, pumps, or motors–is realized through�…
Locating the barrier for folding of single molecules under an external force
Single-molecule pulling experiments on the folding of biomolecules are usually interpreted
with one-dimensional models in which the dynamics occurs on the “pulling coordinate.”�…
with one-dimensional models in which the dynamics occurs on the “pulling coordinate.”�…