Tootfinder

Emergent morphogenesis via planar fabrication enabled by a reduced model of composites
Yupeng Zhang, Adam Alon, M. Khalid Jawed
https://arxiv.org/abs/2508.08198 https://

Emergent morphogenesis via planar fabrication enabled by a reduced model of composites
The ability to engineer complex three-dimensional shapes from planar sheets with precise, programmable control underpins emerging technologies in soft robotics, reconfigurable devices, and functional materials. Here, we present a reduced-order numerical and experimental framework for a bilayer system consisting of a stimuli-responsive thermoplastic sheet (Shrinky Dink) bonded to a kirigami-patterned, inert plastic layer. Upon uniform heating, the active layer contracts while the patterned layer…

Actin driven morphogenesis in hydra
Sabyasachi Mukherjee, Anirban Sain
https://arxiv.org/abs/2509.08655 https://arxiv.org/pdf/2509.08655

Actin driven morphogenesis in hydra
Hydra, a centimeter long cylindrical-shaped freshwater organism, has emerged as an interesting model system for studying morphogenesis in animals. Recently, fluorescent imaging of cytoskeletal actin filaments on the outer surface of hydra has revealed nematic-type arrangement of actin filaments. {Several topological defects in the nematic field have also been detected. In particular, aster-like +1 defects appear at the curved head of hydra and at the tip of its tentacles, while -1/2 defects are…

Growing Reservoirs with Developmental Graph Cellular Automata
Matias Barandiaran, James Stovold
https://arxiv.org/abs/2508.08091 https://arxiv.org/pdf/2508…

Growing Reservoirs with Developmental Graph Cellular Automata
Developmental Graph Cellular Automata (DGCA) are a novel model for morphogenesis, capable of growing directed graphs from single-node seeds. In this paper, we show that DGCAs can be trained to grow reservoirs. Reservoirs are grown with two types of targets: task-driven (using the NARMA family of tasks) and task-independent (using reservoir metrics). Results show that DGCAs are able to grow into a variety of specialized, life-like structures capable of effectively solving benchmark tasks, stat…

Simulating Organogenesis in COMSOL Multiphysics: Tissue Patterning with Directed Cell Migration
Malte Mederacke, Chengyou Yu, Roman Vetter, Dagmar Iber
https://arxiv.org/abs/2509.08930

Simulating Organogenesis in COMSOL Multiphysics: Tissue Patterning with Directed Cell Migration
We present a COMSOL Multiphysics implementation of a continuum model for directed cell migration, a key mechanism underlying tissue self-organization and morphogenesis. The model is formulated as a partial integro-differential equation (PIDE), combining random motility with non-local, density-dependent guidance cues to capture phenomena such as cell sorting and aggregation. Our framework supports simulations in one, two, and three dimensions, with both zero-flux and periodic boundary conditions…

Predicting Brain Morphogenesis via Physics-Transfer Learning
Yingjie Zhao, Yicheng Song, Fan Xu, Zhiping Xu
https://arxiv.org/abs/2509.05305 https://arxiv.…

Predicting Brain Morphogenesis via Physics-Transfer Learning
Brain morphology is shaped by genetic and mechanical factors and is linked to biological development and diseases. Its fractal-like features, regional anisotropy, and complex curvature distributions hinder quantitative insights in medical inspections. Recognizing that the underlying elastic instability and bifurcation share the same physics as simple geometries such as spheres and ellipses, we developed a physics-transfer learning framework to address the geometrical complexity. To overcome the…

Unveiling Biological Models Through Turing Patterns
Yuhan Li, Hongyu Liu, Catharine W. K. Lo
https://arxiv.org/abs/2509.07458 https://arxiv.org/pdf/2509.07…

Unveiling Biological Models Through Turing Patterns
Turing patterns play a fundamental role in morphogenesis and population dynamics, encoding key information about the underlying biological mechanisms. Yet, traditional inverse problems have largely relied on non-biological data such as boundary measurements, neglecting the rich information embedded in the patterns themselves. Here we introduce a new research direction that directly leverages physical observables from nature--the amplitude of Turing patterns--to achieve complete parameter identi…

Controlling the Glass Transition through Active Fluctuating Interactions
Emir Sezik, Henry Alston, Thibault Bertrand
https://arxiv.org/abs/2509.07619 https://

Controlling the Glass Transition through Active Fluctuating Interactions
Fluctuating pairwise interactions are understood to drive fluid-like states in dense biological systems. These states find a broad range of functionalities, such as directing growth during morphogenesis and forming aggregates with heightened mechanical response. However, a tractable model capturing the role of microscopic fluctuating interactions in these structural transitions is crucially lacking. Here, we study a $p$-spin model with fluctuating pairwise couplings (of strength $D_a$ and persi…

On growth and morphogenesis in mechanobiology
Angelo Rosario Carotenuto, Stefania Palumbo, Arsenio Cutolo, Massimiliano Fraldi
https://arxiv.org/abs/2507.20345 https://

On growth and morphogenesis in mechanobiology
Morphoelasticity represents a foundational theory for tracing back growth, remodelling, and morphogenesis, yet crucial challenges persist. A unified growth law, -independent of a priori assumptions about constitutive relations or specified structures of the growth tensor- remains in fact elusive, as does an intimate connection between local anisotropic growth, morphogenesis dynamics, diffusion phenomena and mechanics. When anisotropy of growth is not prescribed arbitrarily, current frameworks m…

Crosslisted article(s) found for nlin.PS. https://arxiv.org/list/nlin.PS/new
[1/1]:
- Predicting Brain Morphogenesis via Physics-Transfer Learning
Yingjie Zhao, Yicheng Song, Fan Xu, Zhiping Xu

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter
Abhinav Singh (Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany, Center for Systems Biology Dresden, Dresden, Germany, School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA), Abhijeet Krishna (Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany, Center for Systems Biology Dresden, Dresden, Germany), Aboutaleb …

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter
We present a topology grounded, multiscale simulation platform for morphogenesis and biological active matter. Morphogenesis and biological active matter represent keystone problems in biology with additional, far-reaching implications across the biomedical sciences. Addressing these problems will require flexible, cross-scale models of tissue shape, development, and dysfunction that can be tuned to understand, model, and predict relevant individual cases. Current approaches to simulating anato…

Chemical Control for the Morphogenesis of Conducting Polymer Dendrites in Water
Antoine Baron, Corentin Scholaert, David Gu\'erin, Yannick Coffinier, Fabien Alibart, S\'ebastien Pecqueur
https://arxiv.org/abs/2507.16626

Chemical Control for the Morphogenesis of Conducting Polymer Dendrites in Water
Conducting polymer dendrite (CPD) morphogenesis is an electrochemical process that unlocks the potential to implement in materio evolving intelligence in electrical systems: As an electronic device experiences transient voltages in an open-space wet environment, electrically conductive structures physically change over time, programming the filtering properties of an interconnect as a non-linear analog device. Mimicking the self-preservation strategies of some sessile organisms, CPDs adapt thei…

Rotational migration in human pancreatic ductal organoids depends on actin and myosin activity
Gengqiang Xie, Chaity Modak, Olalekan H Usman, Raphael WF Tan, Nicole Coca, Gabriela De Jesus, Yue Julia Wang, D. Thirumalai, Xin Li, Jerome Irianto
https://arxiv.org/abs/2509.25680

Rotational migration in human pancreatic ductal organoids depends on actin and myosin activity
Rotational migration is one specific form of collective cell migration when epithelial cells are confined in a spherical geometry, such as in the epithelial acini. This tissue-level rotation motion is crucial for the morphogenesis of multiple epithelial systems. Here, we introduce a new primary human model for the study of rotational migration, pancreatic ductal organoids. Live imaging revealed the persistent rotation of the organoids over time. By tracking the nuclei, the three- dimensional tr…

Cellular Flow Architecture Exposes the Hidden Mechanics of Biological Matter
Tianxiang Ma, Valeriia Grudtsyna, Robin V. B\"olsterli, Amin Doostmohammadi
https://arxiv.org/abs/2508.17974

Cellular Flow Architecture Exposes the Hidden Mechanics of Biological Matter
Understanding how biomechanical reorganization governs key biological processes, such as morphogenesis and development, requires predictive insights into stress distributions and cellular behavior. While traditional approaches focused on cell motion as a response to stress, we demonstrate that Lagrangian coherent structures (LCSs) -- robust attractors and repellers in cellular flows -- precede and drive long-term intercellular stress reorganization, physically governed by the mechanical propert…

Morphogenetic mechanical metamaterials: Emerging tensor properties from self-organized structures
Thomas Froment\`eze, Philippe Michaud, Ali Hassny, Vincent Pateloup
https://arxiv.org/abs/2509.10277

Morphogenetic mechanical metamaterials: Emerging tensor properties from self-organized structures
Understanding how living organisms spontaneously develop complex functional structures inspires innovative approaches in engineering design. Here, we introduce a decentralized generative model based on morphogenesis to autonomously grow mechanical structures with controlled tensorial properties. By adapting Turing's reaction-diffusion concept through anisotropic diffusion, our approach enables the local emergence of microstructures exhibiting tailored stiffness and anisotropy, achieving target …

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