A model for soliton dynamics on a hydrogen-bond network in helical proteins is proposed. It employs in three dimensions the formalism of fully integrable Toda lattices which admits phonons as well as solitons along the hydrogen-bonds of the helices. A simulation of the three dimensional Toda lattice system shows that the solitons are spontaneously created and are stable and moving along the hel...

We discuss the possibility of implementing asynchronous replica-exchange (or parallel tempering) molecular dynamics. In our scheme, the exchange attempts are driven by asynchronous messages sent by one of the computing nodes, so that different replicas are allowed to perform a different number of time-steps between subsequent attempts. The implementation is simple and based on the message-passi...

We study the Brownian dynamics of flexible and semiflexible polymer chains densely grafted on a flat substrate, upon rapid quenching of the system when the quality of solvent becomes poor and chains attempt collapse into a globular state. The collapse process of such a polymer brush differs from individual chains, both in its kinetics and its structural morphology. We find that the resulting co...

The potential energy landscape of a flowing metallic glass is revealed using the activation-relaxation technique. For a two-dimensional Lennard-Jones system initially deformed into a steady-state condition through quasistatic shear, the distribution of activation energies is shown to contain a large fraction of low-energy barriers, consistent with a highly nonequilibrium flow state. The distrib...

Molecular configurations which count as snapshots of a quasi-bound cluster are identified through a retrospective dynamical definition. The trajectory of a molecular cluster is followed, and a clear evaporation event is considered to have occurred when a molecule moves a very long distance away from the others. The cluster is judged to have broken before this condition is satisfied, however, at...

Figure 1: Photographs of constructs (Bar =5mm) and % area change of collagen menisci with time. # Significance between 10 & 20mg/ml (p<0.05) Figure 2: ECM content and equilibrium modulus. Significance compared to *0 week, +alginate, $ 2nd week, % bracket groups. (p<0.05) Injection Molded High Density Type I Collagen Gels for Meniscus Tissue Engineering Puetzer, JL; +Bonassar, LJ +Cornell Univer...

Quark clustering, rather than color super-conducting, could occur in cold quark matter because of the strongly coupling between quarks at realistic baryon densities of compact stars. Although one may still not be able to calculate this conjectured matter from first principles, the inter-cluster interaction might be analogized to the interaction between inert molecules. Cold quark matter would t...

In this paper we present a study of pattern formation in bidimensional systems with competing short-range attractive and long-range repulsive interactions. The interaction parameters are chosen in such a way to analyse two different situations: the spontaneous pattern formation due to the presence of strong competing interactions on different length scales and the pattern formation as a respons...

Eor six years, Eriedrich Schlegel kept a diary of the magnetism therapy of his friend the Countess Eranziska Lesniowska. The Countess's illness was marked by repetitive symptoms often related to memories of past events; she experienced phenomena similar to what Ereud later called the uncanny retum of repressed content. However, Schlegel believed she was clairvoyant and that her symptoms were in...

Dynamical heterogeneity and the decoupling of diffusion and relaxation in a supercooled liquid is investigated via a time-dependent, four-point density correlation function. We show that the main contribution to the corresponding generalized susceptibility x4(t) in a molecular dynamics simulation of a Lennard-Jones liquid arises from spatial correlations between temporarily localized ~‘‘caged’’...