SearcharxivSearch

arXiv subjects

Gary D. Luker

Publications and source records attributed to Gary D. Luker.

2 recordsLinked to original sources

FP-IRL: Fokker--Planck Inverse Reinforcement Learning -- A Physics-Constrained Approach to Markov Decision Processes

Inverse reinforcement learning (IRL) is a powerful paradigm for uncovering the incentive structure that drives agent behavior, by inferring an unknown reward function from observed trajectories within a Markov decision process (MDP). However, most existing IRL methods require access to the transition function, either prescribed or estimated \textit{a priori}, which poses significant challenges when the underlying dynamics are unknown, unobservable, or not easily sampled. We propose Fokker--Planck inverse reinforcement learning (FP-IRL), a novel physics-constrained IRL framework tailored for systems that can be described by Fokker--Planck (FP) dynamics. FP-IRL simultaneously infers both the reward and transition functions directly from trajectory data, without requiring access to sampled transitions. Our method leverages a correspondence between MDPs and the FP equation, linking reward maximization in MDPs with free energy minimization in FP dynamics. This connection enables inference of the FP potential function using our inference approach of variational system identification, from which the full set of MDP components -- reward, transition, and policy -- can be recovered using analytic expressions. We demonstrate the effectiveness of FP-IRL through experiments on synthetic benchmarks and a modified version of the Mountain Car problem. Our results show that FP-IRL achieves accurate recovery of agent incentives while preserving computational efficiency and physical interpretability.

cs.LG

Inference of weak-form partial differential equations describing migration and proliferation mechanisms in wound healing experiments on cancer cells

Targeting signaling pathways that drive cancer cell migration or proliferation is a common therapeutic approach. A popular experimental technique, the scratch assay, measures the migration and proliferation-driven cell closure of a defect in a confluent cell monolayer. These assays do not measure dynamic effects. To improve analysis of scratch assays, we combine high-throughput scratch assays, video microscopy, and system identification to infer partial differential equation (PDE) models of cell migration and proliferation. We capture the evolution of cell density fields over time using live cell microscopy and automated image processing. We employ weak form-based system identification techniques for cell density dynamics modeled with first-order kinetics of advection-diffusion-reaction systems. We present a comparison of our methods to results obtained using traditional inference approaches on previously analyzed 1-dimensional scratch assay data. We demonstrate the application of this pipeline on high throughput 2-dimensional scratch assays and find that low levels of trametinib inhibit wound closure primarily by decreasing random cell migration by approximately 20%. Our integrated experimental and computational pipeline can be adapted for quantitatively inferring the effect of biological perturbations on cell migration and proliferation in various cell lines.

q-bio.CB