output
20042026
most citedCell Detection with Star-convex Polygons

1.7k citations

Showing 2025Show all

12 papers · 1 filter

math.AG2025

Mumford-type Shimura curves contained in the Torelli locus

Thomas Bouchet, Jeroen Hanselman, Andreas Pieper +1

In this article we give explicit equations for two Shimura families of genus 4 curves whose Jacobians are abelian fourfolds of Mumford type. These are the first explicit examples o…

physics.bio-ph2025★ 1 cited

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter

Abhinav Singh, Abhijeet Krishna, Aboutaleb Amiri +11

We present a topology grounded, multiscale simulation platform for morphogenesis and biological active matter. Morphogenesis and biological active matter represent keystone problem…

cond-mat.soft2025

Elasticity and plasticity of epithelial gap closure

Maryam Setoudeh, Pierre A. Haas

Epiboly, during which a tissue closes around the surface of the egg, pervades animal development. This epithelial gap closure involves cell intercalations at the edge of the gap. H…

cond-mat.soft2025★ 1 cited

Control of lumen morphology by lateral and basal cell surfaces

Chandraniva Guha Ray, Markus Mukenhirn, Alf Honigmann +1

Across development, the morphology of fluid-filled lumina enclosed by epithelial tissues arises from an interplay of lumen pressure, mechanics of the cell cortex, and cell-cell adh…

cs.SC2025

Probabilistic algorithm for computing all local minimizers of Morse functions on a compact domain

Mohab Safey El Din, Georgy Scholten, Emmanuel Trélat

Let K be the unit-cube in Rn and f\,: K R^n be a Morse function. We assume that the function f is given by an evaluation program in the noisy model, i.e., the eva…

cond-mat.soft2025★ 11 cited

Mesoscale properties of protein clusters determine the size and nature of liquid-liquid phase separation (LLPS)

Gonen Golani, Manas Seal, Mrityunjoy Kar +3

The observation of Liquid-Liquid Phase Separation (LLPS) in biological cells has dramatically shifted the paradigm that soluble proteins are uniformly dispersed in the cytoplasm or…

cs.LG2025

Spiking Neural Models for Decision-Making Tasks with Learning

Sophie Jaffard, Giulia Mezzadri, Patricia Reynaud-Bouret +1

In cognition, response times and choices in decision-making tasks are commonly modeled using Drift Diffusion Models (DDMs), which describe the accumulation of evidence for a decisi…

physics.bio-ph2025★ 22 cited

Measurements of molecular size and shape on a chip

Xin Zhu, Timothy JD Bennett, Konstantin C Zouboulis +6

Size and shape are critical discriminators between molecular species and states. We describe a micro-chip based high-throughput imaging approach offering rapid and precise determin…

q-bio.MN2025

State- versus Reaction-Based Information Processing in Biochemical Networks

Anne-Lena Moor, Age Tjalma, Manuel Reinhardt +2

Trajectory mutual information is frequently used to quantify information transfer in biochemical systems. Tractable solutions of the trajectory mutual information can be obtained v…

cond-mat.soft2025★ 3 cited

Geometry of T1 transitions in epithelia

Pierre A. Haas

The flows of tissues of epithelial cells often involve T1 transitions. These neighbour exchanges are irreversible rearrangements crossing an energy barrier. Here, by an exact geome…

cond-mat.soft2025★ 3 cited

Euler buckling on curved surfaces

Shiheng Zhao, Pierre A. Haas

Euler buckling epitomises mechanical instabilities: An inextensible straight elastic line buckles under compression when the compressive force reaches a critical value .…

physics.bio-ph2025★ 6 cited

A model for boundary-driven tissue morphogenesis

Daniel S. Alber, Shiheng Zhao, Alexandre O. Jacinto +3

Tissue deformations during morphogenesis can be active, driven by internal processes, or passive, resulting from stresses applied at their boundaries. Here, we introduce the Drosop…