arXiv subjects

Martin Cramer Pedersen

Publications and source records attributed to Martin Cramer Pedersen.

6 recordsLinked to original sources

arXiv2026

Non-equilibrium geometric forces steer spiral waves on folded surfaces

Spiral waves are ubiquitous signatures of non equilibrium dynamics, appearing across chemical, biological, and active systems. Yet, in many living systems these waves unfold on curved and folded surfaces whose geometry has rarely been treated as a dynamical factor. Here we show that surface curvature fundamentally shapes spiral wave behavior and can contribute to the organization of neural activity in the brain. Via analytical theory and simulations of the complex Ginzburg Landau equation (CGLE) on curved surfaces, we demonstrate that curvature enters through the Laplace Beltrami operator as a spatial modulation of effective diffusion. Gradients of this effective diffusion generate a geometric force on spiral defects, and the complex nature of the CGLE produces a complex mobility that leads to non central and non reciprocal responses. Applied to realistic cortical surfaces of the human brain, the model predicts that the pattern of cortical folding stabilizes and localizes spiral waves, while progressive smoothing of the surface erases these non equilibrium structures. This reveals that brain geometry is not a passive scaffold but an active physical constraint that shapes neural dynamics. More broadly, the same geometric mechanism provides a universal route by which curvature and topology control pattern formation across oscillatory, chemical, and active matter systems.

cond-mat.soft↗

arXiv2025

Anti-hyperuniform Critical States of Active Topological Defects

Topological defects are fundamental to the collective dynamics of non-equilibrium systems and in active matter, mediating spontaneous flows, dynamic self-organization, and emergent pattern formation. Here, we reveal critical states in active nematics, marked by slowed defect density relaxation, amplified fluctuations, and heightened sensitivity to activity. Near criticality, defect interactions become long-ranged, scaling with system size, and the system enters an anti-hyperuniform regime with giant number fluctuations of topological defects and defect clustering. This transition reflects a dual scaling behavior: fluctuations are uniform at small scales but become anti-hyperuniform at larger scales, \tm{as supported by experimental measurements on large-field-of-view endothelial monolayers. We find that these anti-hyperuniform states with multiscale defect density fluctuations are robust to varying parameters, introducing frictional damping, and changing boundary conditions.} Finally, we show that the observed anti-hyperuniformity originates from defect clustering, distinguishing this transition from defect-unbinding or phase separation processes. Beyond fundamental implications for non-equilibrium systems, these results may inform biological contexts where topological defects are integral to processes such as morphogenesis and collective cellular self-organization.

cond-mat.soft↗

arXiv2024

Beyond Dipolar Activity: Quadrupolar Stress Drives Collapse of Nematic Order on Frictional Substrates

The field of active nematics has traditionally employed descriptions based on dipolar activity, with interactions that align along a single axis. However, it has been theoretically predicted that interactions with a substrate, prevalent in most biological systems, would require novel forms of activity, such as quadrupolar activity, that are governed by hydrodynamic screening. Here, by combining experiments and numerical simulations, we show that upon light-induced solidification of the underlying medium, microtubule-kinesin mixtures undergo a transformation that leads to a biphasic active suspension. Using an active lyotropic model, we prove that the transition is governed by screening effects that alter the dominant form of active stress. Specifically, the combined effect of friction and quadrupolar activity leads to a hierarchical folding that follows the intrinsic bend instability of the active nematic layer. Our results demonstrate the dynamics of the collapse of orientational order in active nematics and present a new route for controlling active matter by modifying the activity through changing the surrounding environment.

cond-mat.soft↗

arXiv2024

Active particles knead three-dimensional gels into open crumbs

Colloidal gels are prime examples of functional materials exhibiting disordered, amorphous, yet meta-stable forms. They maintain stability through short-range attractive forces and their material properties are tunable by external forces. Combining persistent homology analyses and simulations of three-dimensional colloidal gels doped with active particles, we reveal novel dynamically evolving structures of colloidal gels. Specifically, we show that the local injection of energy by active dopants can lead to highly porous, yet compact gel structures that can significantly affect the transport of active particles within the modified colloidal gel. We further show the substantially distinct structural behaviour between active doping of 2D and 3D systems by revealing how passive interfaces play a topologically different role in interacting with active particles in two and three dimensions. The results open the door to an unexplored prospect of forming a wide variety of compact but highly heterogeneous and percolated porous media through active doping of 3D passive matter, with diverse implications in designing new functional materials to active ground remediation.

cond-mat.soft↗

arXiv2023

Shape2SAS -- a web application to simulate small-angle scattering data and pair distance distributions from user-defined shapes

Shape2SAS is a web application that allows researchers and students to build intuition and understanding of small-angle scattering. It is available at https://somo.chem.utk.edu/shape2sas. The user defines a model of arbitrary shape by combining geometrical subunits, and Shape2SAS then calculates and displays the scattering intensity, the pair distance distribution as well as a visualization of the user-defined shape. Simulated data with realistic noise are also generated. We demonstrate how Shape2SAS can calculate and display the different scattering patterns for various geometrical shapes, such as spheres and cylinders. We also demonstrate how the effect of structure factors can be visualized. Finally, we show how multi-contrast particles can readily be generated, and how the calculated scattering may be used to validate and visualize analytical models generated in analysis software for fitting small-angle scattering data.

cs.GR↗

arXiv2021

Experimental noise in small-angle scattering can be assessed using the Bayesian indirect Fourier transformation

Small-angle X-ray and neutron scattering are widely used to investigate soft matter and biophysical systems. The experimental errors are essential when assessing how well a hypothesized model fits the data. Likewise, they are important when weights are assigned to multiple data sets used to refine the same model. Therefore, it is problematic when experimental errors are over- or under-estimated. A method is presented, using Bayesian indirect Fourier transformation for small-angle scattering data, to assess whether or not a given small-angle scattering data set has over- or under-estimated experimental errors. The method is effective on both simulated and experimental data, and can be used to assess and rescale the errors accordingly. Even if the estimated experimental errors are appropriate, it is ambiguous whether or not a model fits sufficiently well, as the "true" reduced $χ^2$ of the data is not necessarily unity. This is particularly relevant for approaches where overfitting is an inherent challenge, such as reweighting of a simulated molecular dynamics trajectory against small-angle scattering data or ab initio modelling. Using the outlined method, it is shown that one can determine what reduced $χ^2$ to aim for when fitting a model against small-angle scattering data. The method is easily accessible via the web interface BayesApp.

physics.data-an↗