66 citations · 144 across the 7 of their papers we have counts for
7 papers
Conformational dynamics and internal friction in homo-polymer globules: equilibrium vs. non-equilibrium simulations
Thomas R. Einert, Charles E. Sing, Alfredo Alexander-Katz +1
We study the conformational dynamics within homo-polymer globules by solvent-implicit Brownian dynamics simulations. A strong dependence of the internal chain dynamics on the Lenna…
Secondary structure formation of homopolymeric single-stranded nucleic acids including force and loop entropy: implications for DNA hybridization
Thomas R. Einert, Henri Orland, Roland R. Netz
Loops are essential secondary structure elements in folded DNA and RNA molecules and proliferate close to the melting transition. Using a theory for nucleic acid secondary structur…
Theory for RNA folding, stretching, and melting including loops and salt
Thomas R. Einert, Roland R. Netz
Secondary structure formation of nucleic acids strongly depends on salt concentration and temperature. We develop a theory for RNA folding that correctly accounts for sequence effe…
Single polymer adsorption in shear: flattening versus hydrodynamic lift and corrugation effects
Andreas Serr, Christian Sendner, Florian Mueller +2
The adsorption of a single polymer to a flat surface in shear is investigated using Brownian hydrodynamics simulations and scaling arguments. Competing effects are disentangled: in…
A three-state model with loop entropy for the over-stretching transition of DNA
Thomas R. Einert, Douglas B. Staple, Hans-Juergen Kreuzer +1
We introduce a three-state model for a single DNA chain under tension that distinguishes between B-DNA, S-DNA and M (molten or denatured) segments and at the same time correctly ac…
Impact of loop statistics on the thermodynamics of RNA folding
Thomas R. Einert, Paul Näger, Henri Orland +1
Loops are abundant in native RNA structures and proliferate close to the unfolding transition. By including a statistical weight ~ l^{-c} for loops of length l in the recursion rel…