Models and algorithms for the next generation of glass transition studies

Successful computer studies of glass-forming materials need to overcome both the natural tendency to structural ordering and the dramatic increase of relaxation times at low temperatures. We present a comprehensive analysis of eleven glass-forming models to demonstrate that both challenges can be efficiently tackled using carefully designed models of size polydisperse supercooled liquids together with an efficient Monte Carlo algorithm where translational particle displacements are complemented by swaps of particle pairs. We study a broad range of size polydispersities, using both discrete and continuous mixtures, and we systematically investigate the role of particle softness, attractivity and non-additivity of the interactions. Each system is characterized by its robustness against structural ordering and by the efficiency of the swap Monte Carlo algorithm. We show that the combined optimisation of the potential's softness, polydispersity and non-additivity leads to novel computer models with excellent glass-forming ability. For such models, we achieve over ten orders of magnitude gain in the equilibration timescale using the swap Monte Carlo algorithm, thus paving the way to computational studies of static and thermodynamic properties under experimental conditions. In addition, we provide microscopic insights into the performance of the swap algorithm which should help optimizing models and algorithms even further.Comment: 22 pages, 15 fig

Influence of pH and sequence in peptide aggregation via molecular simulation

We employ a recently developed coarse-grained model for peptides and proteins where the effect of pH is automatically included. We explore the effect of pH in the aggregation process of the amyloidogenic peptide KTVIIE and two related sequences, using three different pH environments. Simulations using large systems (24 peptides chains per box) allow us to correctly account for the formation of realistic peptide aggregates. We evaluate the thermodynamic and kinetic implications of changes in sequence and pH upon peptide aggregation, and we discuss how a minimalistic coarse-grained model can account for these details.Comment: 21 pages, 4 figure

Fluctuation effects in ternary AB+A+B polymeric emulsions

We present a Monte Carlo approach to incorporating the effect of thermal fluctuations in field theories of polymeric fluids. This method is applied to a field-theoretic model of a ternary blend of AB diblock copolymers with A and B homopolymers. We find a shift in the line of order-disorder transitions from their mean-field values, as well as strong signatures of the existence of a bicontinuous microemulsion phase in the vicinity of the mean-field Lifshitz critical point. This is in qualitative agreement with a recent series of experiments conducted with various three-dimensional realizations of this model system. Further, we also compare our results and the performance of the presently proposed simulation method to that of an alternative method involving the integration of complex Langevin dynamical equations.Comment: minor changes, references adde

Deducing effective light transport parameters in optically thin systems

We present an extensive Monte Carlo study on light transport in optically thin slabs, addressing both axial and transverse propagation. We completely characterize the so-called ballistic-to-diffusive transition, notably in terms of the spatial variance of the transmitted/reflected profile. We test the validity of the prediction cast by diffusion theory, that the spatial variance should grow independently of absorption and, to a first approximation, of the sample thickness and refractive index contrast. Based on a large set of simulated data, we build a freely available look-up table routine allowing reliable and precise determination of the microscopic transport parameters starting from robust observables which are independent of absolute intensity measurements. We also present the Monte Carlo software package that was developed for the purpose of this study