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Register a new userMultiple phases in stochastic dynamics: geometry and probabilities
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Stochastic dynamics is generated by a matrix of transition probabilities. Certain eigenvectors of this matrix provide observables, and when these are plotted in the appropriate multi-dimensional space the phases (in the sense of phase transitions) of the underlying system become manifest as extremal points. This geometrical construction, which we call an textit{observable-representation of state space}, can allow hierarchical structure to be observed. It also provides a method for the calculation of the probability that an initial points ends in one or another asymptotic state.
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For diffusive stochastic dynamics, the probability to observe any individual trajectory is vanishingly small, making it unclear how to experimentally validate theoretical results for ratios of path probabilities. We provide the missing link between theory and experiment, by establishing a protocol to extract ratios of path probabilities from measured time series. For experiments on a single colloidal particle in a microchannel, we extract both ratios of path probabilities, and the most probable path for a barrier crossing, and find excellent agreement with independently calculated predictions based on the Onsager-Machlup stochastic action. Our experimental results at room temperature are found to be inconsistent with the low-noise Freidlin-Wentzell stochastic action, and we discuss under which circumstances the latter is expected to describe the most probable path. Furthermore, while the experimentally accessible ratio of path probabilities is uniquely determined, the formal path-integral action is known to depend on the time-discretization scheme used for deriving it; we reconcile these two seemingly contradictory facts by careful analysis of the time-slicing derivation of the path integral. Our experimental protocol enables us to probe probability distributions on path space, and allows us to relate theoretical single-trajectory results to measurement.
We introduce a simple nearest-neighbor spin model with multiple metastable phases, the number and decay pathways of which are explicitly controlled by the parameters of the system. With this model we can construct, for example, a system which evolves through an arbitrarily long succession of metastable phases. We also construct systems in which different phases may nucleate competitively from a single initial phase. For such a system, we present a general method to extract from numerical simulations the individual nucleation rates of the nucleating phases. The results show that the Ostwald rule, which predicts which phase will nucleate, must be modified probabilistically when the new phases are almost equally stable. Finally, we show that the nucleation rate of a phase depends, among other things, on the number of other phases accessible from it.
An approach for simulating bionanosystems, such as viruses and ribosomes, is presented. This calibration-free approach is based on an all-atom description for bionanosystems, a universal interatomic force field, and a multiscale perspective. The supramillion-atom nature of these bionanosystems prohibits the use of a direct molecular dynamics approach for phenomena like viral structural transitions or self-assembly that develop over milliseconds or longer. A key element of these multiscale systems is the cross-talk between, and consequent strong coupling of, processes over many scales in space and time. We elucidate the role of interscale cross-talk and overcome bionanosystem simulation difficulties with automated construction of order parameters (OPs) describing supra-nanometer scale structural features, construction of OP dependent ensembles describing the statistical properties of atomistic variables that ultimately contribute to the entropies driving the dynamics of the OPs, and the derivation of a rigorous equation for the stochastic dynamics of the OPs. Since the atomic scale features of the system are treated statistically, several ensembles are constructed that reflect various experimental conditions. The theory provides a basis for a practical, quantitative bionanosystem modeling approach that preserves the cross-talk between the atomic and nanoscale features. A method for integrating information from nanotechnical experimental data in the derivation of equations of stochastic OP dynamics is also introduced.
Freidlin-Wentzell theory of large deviations can be used to compute the likelihood of extreme or rare events in stochastic dynamical systems via the solution of an optimization problem. The approach gives exponential estimates that often need to be refined via calculation of a prefactor. Here it is shown how to perform these computations in practice. Specifically, sharp asymptotic estimates are derived for expectations, probabilities, and mean first passage times in a form that is geared towards numerical purposes: they require solving well-posed matrix Riccati equations involving the minimizer of the Freidlin-Wentzell action as input, either forward or backward in time with appropriate initial or final conditions tailored to the estimate at hand. The usefulness of our approach is illustrated on several examples. In particular, invariant measure probabilities and mean first passage times are calculated in models involving stochastic partial differential equations of reaction-advection-diffusion type.
We study single crystals of Dy$_2$Ti$_2$O$_7$ and Ho$_2$Ti$_2$O$_7$ under magnetic field and stress applied along their [001] direction. We find that many of the features that the emergent gauge field of spin ice confers to the macroscopic magnetic properties are preserved in spite of the finite temperature. The magnetisation vs. field shows an upward convexity within a broad range of fields, while the static and dynamic susceptibilities present a peculiar peak. Following this feature for both compounds, we determine a single experimental transition curve: that for the Kasteleyn transition in three dimensions, proposed more than a decade ago. Additionally, we observe that compression up to $-0.8%$ along [001] does not significantly change the thermodynamics. However, the dynamical response of Ho$_2$Ti$_2$O$_7$ is quite sensitive to changes introduced in the ${rm Ho}^{3+}$ environment. Uniaxial compression can thus open up experimental access to equilibrium properties of spin ice at low temperatures.
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