Learning spatio-temporal patterns with Neural Cellular Automata

PLoS Comput Biol. 2024 Apr 26;20(4):e1011589. doi: 10.1371/journal.pcbi.1011589. eCollection 2024 Apr.

Abstract

Neural Cellular Automata (NCA) are a powerful combination of machine learning and mechanistic modelling. We train NCA to learn complex dynamics from time series of images and Partial Differential Equation (PDE) trajectories. Our method is designed to identify underlying local rules that govern large scale dynamic emergent behaviours. Previous work on NCA focuses on learning rules that give stationary emergent structures. We extend NCA to capture both transient and stable structures within the same system, as well as learning rules that capture the dynamics of Turing pattern formation in nonlinear PDEs. We demonstrate that NCA can generalise very well beyond their PDE training data, we show how to constrain NCA to respect given symmetries, and we explore the effects of associated hyperparameters on model performance and stability. Being able to learn arbitrary dynamics gives NCA great potential as a data driven modelling framework, especially for modelling biological pattern formation.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Computational Biology*
  • Computer Simulation
  • Humans
  • Machine Learning*
  • Models, Neurological*
  • Neural Networks, Computer*
  • Neurons / physiology
  • Spatio-Temporal Analysis

Grants and funding

ADR received funding through a PhD stipend paid by the EPSRC Centre for Doctoral Training in Mathematical Modelling, Analysis and Computation (MAC-MIGS) (grant number: EP/S023291/1, url: https://www.ukri.org/councils/epsrc/). The funder had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.