In this article, we study wave dynamics in the fractional nonlinear Schrödinger equation with a modulated honeycomb potential. This problem arises from recent research interests in the interplay between topological materials and nonlocal governing equations. Both are current focuses in scientific research fields. We first develop the Floquet-Bloch spectral theory of the linear fractional Schrödinger operator with a honeycomb potential. Especially, we prove the existence of conical degenerate points, i.e., Dirac points, at which two dispersion band functions intersect. We then investigate the dynamics of wave packets spectrally localized at a Dirac point and derive the leading effective envelope equation. It turns out the envelope can be described by a nonlinear Dirac equation with a varying mass. With rigorous error estimates, we demonstrate that the asymptotic solution based on the effective envelope equation approximates the true solution well in the weighted-H^s space.

In this paper, we propose an unfitted Nitsche's method to compute the band structures of phononic crystal with impurities of general geometry. The proposed method does not require the background mesh to fit the interfaces of impurities, and thus avoids the expensive cost of generating body-fitted meshes and simplifies the inclusion of interface conditions in the formulation. The quasi-periodic boundary conditions are handled by the Floquet-Bloch transform, which converts the computation of band structures into an eigenvalue problem with periodic boundary conditions. More importantly, we show the well-posedness of the proposed method using a delicate argument based on the trace inequality, and further prove the convergence by the Babuška-Osborn theory. We achieve the optimal convergence rate at the presence of the impurities of general geometry. We confirm the theoretical results by two numerical examples, and show the capability of the proposed methods for computing the band structures without fitting the interfaces of impurities.

Due to the intrinsic complexity and nonlinearity of chemical reactions, direct applications of traditional machine learning algorithms may face with many difficulties. In this study, through two concrete examples with biological background, we illustrate how the key ideas of multiscale modeling can help to reduce the computational cost of machine learning a lot, as well as how machine learning algorithms perform model reduction automatically in a time-scale separated system. Our study highlights the necessity and effectiveness of an integration of machine learning algorithms and multiscale modeling during the study of chemical reactions.

Wave dynamics in topological materials has been widely studied recently. A striking feature is the existence of robust and chiral wave propagations that have potential applications in many fields. A common way to realize such wave patterns is to utilize Dirac points which carry topological indices and is supported by the symmetries of the media. In this work, we investigate these phenomena in photonic media. Starting with Maxwell's equations with a honeycomb material weight as well as the nonlinear Kerr effect, we first prove the existence of Dirac points in the dispersion surfaces of transverse electric and magnetic Maxwell operators under very general assumptions of the material weight. Our assumptions on the material weight are almost the minimal requirements to ensure the existence of Dirac points in a general hexagonal photonic crystal. We then derive the associated wave packet dynamics in the scenario where the honeycomb structure is weakly modulated. It turns out the reduced envelope equation is generally a two-dimensional nonlinear Dirac equation with a spatially varying mass. By studying the reduced envelope equation with a domain-wall-like mass term, we realize the subtle wave motions which are chiral and immune to local defects. The underlying mechanism is the existence of topologically protected linear line modes, also referred to as edge states. However, we show that these robust linear modes do not survive with nonlinearity. We demonstrate the existence of nonlinear line modes, which can propagate in the nonlinear media based on high-accuracy numerical computations. Moreover, we also report a new type of nonlinear modes which are localized in both directions.

Mathematical analysis on electromagnetic waves in photonic graphene, a photonic topological material which has a honeycomb structure, is one of the most important current research topics. By modulating the honeycomb structure, numerous topological phenomena have been observed recently. The electromagnetic waves in such a media are generally described by the 2-dimensional wave equation. It has been shown that the corresponding elliptic operator with a honeycomb material weight has Dirac points in its dispersion surfaces. In this paper, we study the time evolution of the wave packets spectrally concentrated at such Dirac points in a modulated honeycomb material weight. We prove that such wave packet dynamics is governed by the Dirac equation with a varying mass in a large but finite time. Our analysis provides mathematical insights to those topological phenomena in photonic graphene.