Related papers: Universal Cold RNA Phase Transitions
We use mesoscopic non-equilibrium thermodynamics theory to describe RNA unfolding under tension. The theory introduces reaction coordinates, characterizing a continuum of states for each bond in the molecule. The unfolding considered is so…
We have observed the superfluid phase transition in a strongly interacting Fermi gas via high-precision measurements of the local compressibility, density and pressure down to near-zero entropy. Our data completely determine the universal…
Glass formers are in general classified as strong or fragile depending on whether their relaxation rates follow Arrhenius or super-Arrhenius temperature dependence. There are however notable exceptions such as water, which exhibit a…
We use large-scale molecular dynamics simulations to study the kinetics of the liquid-gas phase separation if the temperature is lowered across the glass transition of the dense phase. We observe a gradual change from phase separated…
First shells of hydration and bulk solvent plays a crucial role in the folding of proteins. Here, the role of water in the dynamics of proteins has been investigated using a theoretical protein-solvent model and a statistical physics…
Two special dynamical transitions of universal character have been recently observed in macromolecules at $T_{D}\sim 180 - 220$ K and $T^{*}\sim 100$ K. Despite their relevance, a complete understanding of the nature of these transitions…
The intricate network of interactions observed in RNA three-dimensional structures is often described in terms of a multitude of geometrical properties, including helical parameters, base pairing/stacking, hydrogen bonding and backbone…
Phase transitions of matter under changes of external environment such as temperature and magnetic field have attracted great interests to various quantum many-body systems. Several phase transitions must have occurred in neutron stars as…
DNA denaturation, wetting in two dimensions, depinning of a flux line, and other problems map onto a phase transition with effective long range interaction. It yields giant non-universal critical indexes, arbitrarily large macroscopic…
Non-coding RNA molecules fold into precise base pairing patterns to carry out critical roles in genetic regulation and protein synthesis. We show here that coupling systematic mutagenesis with high-throughput SHAPE chemical mapping enables…
Theories with warped extra dimensions, like the Randall-Sundrum (RS) model, exhibit a holographic phase transition from a hot, deconfined black brane phase to a cool, confined phase. The standard picture of a first-order, strongly…
DNA is an astonishing material that can be used as a molecular building block to construct periodic arrays and devices with nanoscale accuracy and precision. Here, we present simple bead-spring model of DNA nanostars having three, four and…
We use neutron scattering to study the spin and lattice structures of single crystal and powder samples of Na$_{1-\delta}$FeAs ($T_c = 23$ K). On cooling from room temperature, the system goes through a series of phase transitions: first…
A universal dynamical crossover temperature, Tcr, in glassy liquids, associated with the {\alpha}-\b{eta} bifurcation temperature, TB, has been observed in dielectric spectroscopy and other experiments. Tcr lies significantly above the…
Conformational entropy for atomic-level, three dimensional biomolecules is known experimentally to play an important role in protein-ligand discrimination, yet reliable computation of entropy remains a difficult problem. Here we describe…
HiRE-RNA is a simplified, coarse-grained RNA model for the prediction of equilibrium configurations, dynamics and thermodynamics. Using a reduced set of particles and detailed interactions accounting for base-pairing and stacking we show…
Instability patterns of rolling up a sleeve appear more intricate than the ones of walking over a rug on floor, both characterized as uniaxially compressed soft-film/stiff-substrate systems. This can be explained by curvature effects. To…
We extend recent methods for parametric sequence alignment to the parameter space for scoring RNA folds. This involves the construction of an RNA polytope. A vertex of this polytope corresponds to RNA secondary structures with common…
The statistical physics of homogeneous DNA is investigated by the imaginary time path integral formalism. The base pair stretchings are described by an ensemble of paths selected through a macroscopic constraint, the fulfillement of the…
We used high-resolution quasielastic neutron scattering spectroscopy to study the single-particle dynamics of water molecules on the surface of hydrated DNA samples. Both H2O and D2O hydrated samples were measured. The contribution of…