Browse
Submit Data
Databases
API
Help

Dataset Information

23 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Universal natural shapes: from unifying shape description to simple methods for shape analysis and boundary value problems.

ABSTRACT: Gielis curves and surfaces can describe a wide range of natural shapes and they have been used in various studies in biology and physics as descriptive tool. This has stimulated the generalization of widely used computational methods. Here we show that proper normalization of the Levenberg-Marquardt algorithm allows for efficient and robust reconstruction of Gielis curves, including self-intersecting and asymmetric curves, without increasing the overall complexity of the algorithm. Then, we show how complex curves of k-type can be constructed and how solutions to the Dirichlet problem for the Laplace equation on these complex domains can be derived using a semi-Fourier method. In all three methods, descriptive and computational power and efficiency is obtained in a surprisingly simple way.

SUBMITTER: Gielis J

PROVIDER: S-EPMC3459917 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Analysis of tangential contact boundary value problems using potential functions.

Project description:This paper presents an analysis technique of high-order contact potential problems and its application to an elastic settlement analysis of a shallow foundation system subjected to a combined traction boundary condition. Closed-form solutions of potential functions are derived for an elastic half-space subjected to bilinear tangential traction boundary conditions over rectangular surface regions. Using the principle of superposition, the present solutions provide a means to form an approximate and continuous solution of elastic contact problems with higher-order tangential boundary conditions. As an application example, an elastic settlement analysis of a rigid footing founded on a dense granular soil is performed under a tangential traction boundary condition prescribed in an analogy with the stress equilibrium states of static sandpiles. A generalized solution approach to combined normal and tangential traction boundary value problems is discussed in the context of foundation engineering.

| S-EPMC6458418 | biostudies-literature

DeepGreen: deep learning of Green's functions for nonlinear boundary value problems.

Project description:Boundary value problems (BVPs) play a central role in the mathematical analysis of constrained physical systems subjected to external forces. Consequently, BVPs frequently emerge in nearly every engineering discipline and span problem domains including fluid mechanics, electromagnetics, quantum mechanics, and elasticity. The fundamental solution, or Green's function, is a leading method for solving linear BVPs that enables facile computation of new solutions to systems under any external forcing. However, fundamental Green's function solutions for nonlinear BVPs are not feasible since linear superposition no longer holds. In this work, we propose a flexible deep learning approach to solve nonlinear BVPs using a dual-autoencoder architecture. The autoencoders discover an invertible coordinate transform that linearizes the nonlinear BVP and identifies both a linear operator L and Green's function G which can be used to solve new nonlinear BVPs. We find that the method succeeds on a variety of nonlinear systems including nonlinear Helmholtz and Sturm-Liouville problems, nonlinear elasticity, and a 2D nonlinear Poisson equation and can solve nonlinear BVPs at orders of magnitude faster than traditional methods without the need for an initial guess. The method merges the strengths of the universal approximation capabilities of deep learning with the physics knowledge of Green's functions to yield a flexible tool for identifying fundamental solutions to a variety of nonlinear systems.

| S-EPMC8566504 | biostudies-literature

Nonlinear two-point boundary value problems: applications to a cholera epidemic model.

Project description:This paper is concerned primarily with constructive mathematical analysis of a general system of nonlinear two-point boundary value problem when an empirically constructed candidate for an approximate solution (quasi-solution) satisfies verifiable conditions. A local analysis in a neighbour- hood of a quasi-solution assures the existence and uniqueness of solutions and, at the same time, provides error bounds for approximate solutions. Applying this method to a cholera epidemic model, we obtain an analytical approximation of the steady-state solution with rigorous error bounds that also displays dependence on a parameter. In connection with this epidemic model, we also analyse the basic reproduction number, an important threshold quantity in the epidemiology context. Through a complex analytic approach, we determine the principal eigenvalue to be real and positive in a range of parameter values.

| S-EPMC7069490 | biostudies-literature

Simulating Plasmon Resonances of Gold Nanoparticles with Bipyramidal Shapes by Boundary Element Methods.

Project description:Computational modeling and accurate simulations of localized surface plasmon resonance (LSPR) absorption properties are reported for gold nanobipyramids (GNBs), a class of metal nanoparticle that features highly tunable, geometry-dependent optical properties. GNB bicone models with spherical tips performed best in reproducing experimental LSPR spectra while the comparison with other geometrical models provided a fundamental understanding of base shapes and tip effects on the optical properties of GNBs. Our results demonstrated the importance of averaging all geometrical parameters determined from transmission electron microscopy images to build representative models of GNBs. By assessing the performances of LSPR absorption spectra simulations based on a quasi-static approximation, we provided an applicability range of this approach as a function of the nanoparticle size, paving the way to the theoretical study of the coupling between molecular electron densities and metal nanoparticles in GNB-based nanohybrid systems, with potential applications in the design of nanomaterials for bioimaging, optics and photocatalysis.

| S-EPMC7584360 | biostudies-literature

About positivity of green's functions for nonlocal boundary value problems with impulsive delay equations.

Project description:The impulsive delay differential equation is considered (Lx)(t) = x'(t) + ∑(i=1)(m) p(i)(t)x(t - τ(i) (t)) = f(t), t ∈ [a, b], x(t j) = β(j)x(t(j - 0)), j = 1,…, k, a = t0 < t1 < t2 < ⋯<t k < t k+1 = b, x(ζ) = 0, ζ ∉ [a, b], with nonlocal boundary condition lx = ∫(a)(b) φ(s)x'(s)ds + θx(a) = c, φ ∈ L ∞ [a, b]; θ, c ∈ R. Various results on existence and uniqueness of solutions and on positivity/negativity of the Green's functions for this equation are obtained.

| S-EPMC3956640 | biostudies-other

Fixed point results for G-α-contractive maps with application to boundary value problems.

Project description:We unify the concepts of G-metric, metric-like, and b-metric to define new notion of generalized b-metric-like space and discuss its topological and structural properties. In addition, certain fixed point theorems for two classes of G-α -admissible contractive mappings in such spaces are obtained and some new fixed point results are derived in corresponding partially ordered space. Moreover, some examples and an application to the existence of a solution for the first-order periodic boundary value problem are provided here to illustrate the usability of the obtained results.

| S-EPMC4033538 | biostudies-other

Multiple positive solutions to nonlinear boundary value problems of a system for fractional differential equations.

Project description:By using Krasnoselskii's fixed point theorem, we study the existence of at least one or two positive solutions to a system of fractional boundary value problems given by -D(0+)(ν1)y1(t) = λ1a1(t)f(y1(t), y2(t)), - D(0+)(ν2)y2(t) = λ2a2(t)g(y1(t), y2(t)), where D(0+)(ν) is the standard Riemann-Liouville fractional derivative, ν1, ν2 ∈ (n - 1, n] for n > 3 and n ∈ N, subject to the boundary conditions y1((i))(0) = 0 = y ((i))(0), for 0 ≤ i ≤ n - 2, and [D(0+)(α)y1(t)] t=1 = 0 = [D(0+ (α)y2(t)] t=1, for 1 ≤ α ≤ n - 2, or y1((i))(0) = 0 = y ((i))(0), for 0 ≤ i ≤ n - 2, and [D(0+)(α)y1(t)] t=1 = ϕ1(y1), [D(0+)(α)y2(t)] t=1 = ϕ2(y2), for 1 ≤ α ≤ n - 2, ϕ1, ϕ2 ∈ C([0,1], R). Our results are new and complement previously known results. As an application, we also give an example to demonstrate our result.

| S-EPMC3921945 | biostudies-other

Simple particle shapes for DEM simulations of railway ballast: influence of shape descriptors on packing behaviour.

Project description:AbstractIn any DEM simulation, the chosen particle shape will greatly influence the simulated material behaviour. For a specific material, e.g. railway ballast, it remains an open question how to model the particle shape, such that DEM simulations are computationally efficient and simulation results are in good accordance with measurements. While DEM shape modelling for railway ballast is well addressed in the literature, approaches mainly aim at approximating the stones' actual shape, resulting in rather complex and thus inefficient particle shapes. In contrast, very simple DEM shapes will be constructed, clumps of three spheres, which aim to approximate shape descriptors of the considered ballast material. In DEM simulations of the packing behaviour, a set of clump shapes is identified, which can pack at porosities observed at track sites, as well as in lab tests. The relation between particle shape (descriptors) and obtained packing (characteristic) is investigated in a correlation analysis. The simulated packing's porosity is strongly correlated to four shape descriptors, which are also strongly correlated among each other. Thus, to derive simple shape models of a given particle shape, matching one of these shape descriptors, might be a good first step to bring simulated porosities closer to measured ones. The conducted correlation analysis also shows that packing's coordination number and isotropic fabric are correlated to more shape descriptors, making it more difficult to estimate the effect of particle shape on these quantities.Graphic abstract

| S-EPMC7093080 | biostudies-literature

Linel2D-Net: A deep learning approach to solving 2D linear elastic boundary value problems on image domains.

Project description:Efficient solution of physical boundary value problems (BVPs) remains a challenging task demanded in many applications. Conventional numerical methods require time-consuming domain discretization and solving techniques that have limited throughput capabilities. Here, we present an efficient data-driven DNN approach to non-iterative solving arbitrary 2D linear elastic BVPs. Our results show that a U-Net-based surrogate model trained on a representative set of reference FDM solutions can accurately emulate linear elastic material behavior with manifold applications in deformable modeling and simulation.

| S-EPMC11002675 | biostudies-literature

Unifying description of competing orders in two-dimensional quantum magnets.

Project description:Quantum magnets provide the simplest example of strongly interacting quantum matter, yet they continue to resist a comprehensive understanding above one spatial dimension. We explore a promising framework in two dimensions, the Dirac spin liquid (DSL) - quantum electrodynamics (QED3) with 4 Dirac fermions coupled to photons. Importantly, its excitations include magnetic monopoles that drive confinement. We address previously open key questions - the symmetry actions on monopoles on square, honeycomb, triangular and kagome lattices. The stability of the DSL is enhanced on triangular and kagome lattices compared to bipartite (square and honeycomb) lattices. We obtain the universal signatures of the DSL on triangular and kagome lattices, including those of monopole excitations, as a guide to numerics and experiments on existing materials. Even when unstable, the DSL helps unify and organize the plethora of ordered phases in correlated two-dimensional materials.

| S-EPMC6751208 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data