217 citations · 1.5k across the 27 of their papers we have counts for
27 papers
DNA handles bias force-dependent looping times
Wout Laeremans, Jef Hooyberghs, Wouter G. Ellenbroek
DNA loop formation is central to gene regulation, and its kinetics depend sensitively on mechanical tension. In both single-molecule experiments and biological settings, this tensi…
Synthetic design of force-responsive hydrogels with ring-forming catch bonds
Wout Laeremans, Wouter G. Ellenbroek
Catch bonds are interactions whose lifetimes increase under mechanical load, a counterintuitive behaviour that underlies diverse biological processes. Translating this mechanism to…
Theoretical Models for Tension-Dependent DNA Looping Time
Wout Laeremans, Wouter G Ellenbroek
The influence of tension on DNA looping has been studied both experimentally and theoretically in the past. However, different theoretical models have yielded different predictions…
Polymer dynamics under tension: mean first passage time for looping
Wout Laeremans, Anne Floor den Ouden, Jef Hooyberghs +1
This study deals with polymer looping, an important process in many chemical and biological systems. We investigate basic questions on the looping dynamics of a polymer under tensi…
From hydrodynamics to dipolar colloids: modeling complex interactions and self-organization with generalized potentials
T. J. J. M. van Overveld, W. G. Ellenbroek, J. M. Meijer +2
The self-organization of clusters of particles is a fundamental phenomenon across various physical systems, including hydrodynamic and colloidal systems. One example is that of den…
Associative bond swaps in molecular dynamics
Simone Ciarella, Wouter G. Ellenbroek
We implement a three-body potential to model associative bond swaps, and release it as part of the HOOMD-blue software. The use of a three-body potential to model swaps has been pr…