Breast cancer is a challenging global health problem among women. This study investigates the intricate breast tumour microenvironment (TME) dynamics utilizing data from mammary-specific polyomavirus middle T antigen overexpression mouse models (MMTV-PyMT). It incorporates endothelial cells (ECs), oxygen and vascular endothelial growth factors (VEGF) to examine the interplay of angiogenesis, hypoxia, VEGF and immune cells in cancer progression.
View Article and Find Full Text PDFThe existence of breather-type solutions, i.e., solutions that are periodic in time and exponentially localized in space, is a very unusual feature for continuum, nonlinear wave-type equations.
View Article and Find Full Text PDFMotivated by an exact mapping between equilibrium properties of a one-dimensional chain of quantum Ising spins in a transverse field (the transverse field Ising (TFI) model) and a two-dimensional classical array of particles in double-well potentials (the "ϕ4 model") with weak inter-chain coupling, we explore connections between the driven variants of the two systems. We argue that coupling between the fundamental topological solitary waves in the form of kinks between neighboring chains in the classical ϕ4 system is the analog of the competing effect of the transverse field on spin flips in the quantum TFI model. As an example application, we mimic simplified measurement protocols in a closed quantum model system by studying the classical ϕ4 model subjected to periodic perturbations.
View Article and Find Full Text PDFIn the present work we explore the interaction of a quasi-one-dimensional line kink of the sine-Gordon equation moving in two-dimensional spatial domains. We develop an effective equation describing the kink motion, characterizing its center position dynamics as a function of the transverse variable. The relevant description is valid both in the Hamiltonian realm and in the nonconservative one bearing gain and loss.
View Article and Find Full Text PDFWe experimentally realize the Peregrine soliton in a highly particle-imbalanced two-component repulsive Bose-Einstein condensate in the immiscible regime. The effective focusing dynamics and resulting modulational instability of the minority component provide the opportunity to dynamically create a Peregrine soliton with the aid of an attractive potential well that seeds the initial dynamics. The Peregrine soliton formation is highly reproducible, and our experiments allow us to separately monitor the minority and majority components, and to compare with the single component dynamics in the absence or presence of the well with varying depths.
View Article and Find Full Text PDFWe consider a dimer lattice of the Fermi-Pasta-Ulam-Tsingou (FPUT) type, where alternating linear couplings have a controllably small difference and the cubic nonlinearity (β-FPUT) is the same for all interaction pairs. We use a weakly nonlinear formal reduction within the lattice band gap to obtain a continuum, nonlinear Dirac-type system. We derive the Dirac soliton profiles and the model's conservation laws analytically.
View Article and Find Full Text PDFDeflation is an efficient numerical technique for identifying new branches of steady state solutions to nonlinear partial differential equations. Here, we demonstrate how to extend deflation to discover new periodic orbits in nonlinear dynamical lattices. We employ our extension to identify discrete breathers, which are generic exponentially localized, time-periodic solutions of such lattices.
View Article and Find Full Text PDFWe explore the inclusion of vaccination in compartmental epidemiological models concerning the delta and omicron variants of the SARS-CoV-2 virus that caused the COVID-19 pandemic. We expand on our earlier compartmental-model work by incorporating vaccinated populations. We present two classes of models that differ depending on the immunological properties of the variant.
View Article and Find Full Text PDFIn the present study the interaction of a sine-Gordon kink with a localized inhomogeneity is considered. In the absence of dissipation, the inhomogeneity considered is found to impose a potential energy barrier. The motion of the kink for near-critical values of velocities separating transmission from barrier reflection is studied.
View Article and Find Full Text PDFWe introduce a methodology for seeking conservation laws within a Hamiltonian dynamical system, which we term "neural deflation." Inspired by deflation methods for steady states of dynamical systems, we propose to iteratively train a number of neural networks to minimize a regularized loss function accounting for the necessity of conserved quantities to be in involution and enforcing functional independence thereof consistently in the infinite-sample limit. The method is applied to a series of integrable and nonintegrable lattice differential-difference equations.
View Article and Find Full Text PDFIn the present work we study coherent structures in a one-dimensional discrete nonlinear Schrödinger lattice in which the coupling between waveguides is periodically modulated. Numerical experiments with single-site initial conditions show that, depending on the power, the system exhibits two fundamentally different behaviors. At low power, initial conditions with intensity concentrated in a single site give rise to transport, with the energy moving unidirectionally along the lattice, whereas high-power initial conditions yield stationary solutions.
View Article and Find Full Text PDFThis work focuses on the study of time-periodic solutions, including breathers, in a nonlinear lattice consisting of elements whose contacts alternate between strain hardening and strain softening. The existence, stability, and bifurcation structure of such solutions, as well as the system dynamics in the presence of damping and driving, are studied systematically. It is found that the linear resonant peaks in the system bend toward the frequency gap in the presence of nonlinearity.
View Article and Find Full Text PDFMetapopulation models have been a popular tool for the study of epidemic spread over a network of highly populated nodes (cities, provinces, countries) and have been extensively used in the context of the ongoing COVID-19 pandemic. In the present work, we revisit such a model, bearing a particular case example in mind, namely that of the region of Andalusia in Spain during the period of the summer-fall of 2020 (i.e.
View Article and Find Full Text PDFWe consider the instability and stability of periodic stationary solutions to the classical ϕ^{4} equation numerically. In the superluminal regime, the model possesses dnoidal and cnoidal waves. The former are modulationally unstable and the spectrum forms a figure eight intersecting at the origin of the spectral plane.
View Article and Find Full Text PDFIn the present work we explore the concept of solitary wave billiards. That is, instead of a point particle, we examine a solitary wave in an enclosed region and examine its collision with the boundaries and the resulting trajectories in cases which for particle billiards are known to be integrable and for cases that are known to be chaotic. A principal conclusion is that solitary wave billiards are generically found to be chaotic even in cases where the classical particle billiards are integrable.
View Article and Find Full Text PDFIn the present work we revisit the Salerno model as a prototypical system that interpolates between a well-known integrable system (the Ablowitz-Ladik lattice) and an experimentally tractable, nonintegrable one (the discrete nonlinear Schrödinger model). The question we ask is, for "generic" initial data, how close are the integrable to the nonintegrable models? Our more precise formulation of this question is, How well is the constancy of formerly conserved quantities preserved in the nonintegrable case? Upon examining this, we find that even slight deviations from integrability can be sensitively felt by measuring these formerly conserved quantities in the case of the Salerno model. However, given that the knowledge of these quantities requires a deep physical and mathematical analysis of the system, we seek a more "generic" diagnostic towards a manifestation of integrability breaking.
View Article and Find Full Text PDFWe consider a previously experimentally realized discrete model that describes a mechanical metamaterial consisting of a chain of pairs of rigid units connected by flexible hinges. Upon analyzing the linear band structure of the model, we identify parameter regimes in which this system may possess discrete breather solutions with frequencies inside the gap between optical and acoustic dispersion bands. We compute numerically exact solutions of this type for several different parameter regimes and investigate their properties and stability.
View Article and Find Full Text PDFR Soc Open Sci
December 2022
It is widely accepted that the number of reported cases during the first stages of the COVID-19 pandemic severely underestimates the number of actual cases. We leverage delay embedding theorems of Whitney and Takens and use Gaussian process regression to estimate the number of cases during the first 2020 wave based on the second wave of the epidemic in several European countries, South Korea and Brazil. We assume that the second wave was more accurately monitored, even though we acknowledge that behavioural changes occurred during the pandemic and region- (or country-) specific monitoring protocols evolved.
View Article and Find Full Text PDFMany approaches using compartmental models have been used to study the COVID-19 pandemic, with machine learning methods applied to these models having particularly notable success. We consider the Susceptible-Infected-Confirmed-Recovered-Deceased (SICRD) compartmental model, with the goal of estimating the unknown infected compartment , and several unknown parameters. We apply a variation of a "Physics Informed Neural Network" (PINN), which uses knowledge of the system to aid learning.
View Article and Find Full Text PDFJ Phys Condens Matter
November 2022
Here we revisit the topic of stationary and propagating solitonic excitations in self-repulsive three-dimensional (3D) Bose-Einstein condensates by quantitatively comparing theoretical analysis and associated numerical computations with our experimental results. Motivated by numerous experimental efforts, including our own herein, we use fully 3D numerical simulations to explore the existence, stability, and evolution dynamics of planar dark solitons. This also allows us to examine their instability-induced decay products including solitonic vortices and vortex rings.
View Article and Find Full Text PDFWe study the interactions of two or more solitary waves in the Adlam-Allen model describing the evolution of a (cold) plasma of positive and negative charges, in the presence of electric and transverse magnetic fields. In order to show that the interactions feature an exponentially repulsive nature, we elaborate two distinct approaches: (a) using energetic considerations and the Hamiltonian structure of the model, and (b) using the so-called Manton method. We compare these findings with results of direct simulations, and we identify adjustments necessary to achieve a quantitative match between them.
View Article and Find Full Text PDFWe present a simple model for the spread of an infection that incorporates spatial variability in population density. Starting from first-principle considerations, we explore how a novel partial differential equation with state-dependent diffusion can be obtained. This model exhibits higher infection rates in the areas of higher population density-a feature that we argue to be consistent with epidemiological observations.
View Article and Find Full Text PDFWe present a mathematical model that describes how tumour heterogeneity evolves in a tissue slice that is oxygenated by a single blood vessel. Phenotype is identified with the stemness level of a cell and determines its proliferative capacity, apoptosis propensity and response to treatment. Our study is based on numerical bifurcation analysis and dynamical simulations of a system of coupled, non-local (in phenotypic "space") partial differential equations that link the phenotypic evolution of the tumour cells to local tissue oxygen levels.
View Article and Find Full Text PDFWe propose an alternative to the standard mechanisms for the formation of rogue waves in a nonconservative, nonlinear lattice dynamical system. We consider an ordinary differential equation (ODE) system that features regular periodic bursting arising from forced symmetry breaking. We then connect such potentially exploding units via a diffusive lattice coupling and investigate the resulting spatiotemporal dynamics for different types of initial conditions (localized or extended).
View Article and Find Full Text PDFIn the present work, we revisit a recently proposed and experimentally realized topological two-dimensional lattice with periodically time-dependent interactions. We identify the fundamental solitons, previously observed in experiments and direct numerical simulations, as exact, exponentially localized, periodic in time solutions. This is done for a variety of phase-shift angles of the central nodes upon an oscillation period of the coupling strength.
View Article and Find Full Text PDF