aiqbench analysis
This study introduces a Physics-Flavored Neural Network (PFNN) architecture that integrates mechanistic biophysical models into CNN-Transformer structures for analyzing engineered muscle tissues. By leveraging synthetic data and unsupervised self-alignment, the approach overcomes limitations in labeled biological datasets to extract high-fidelity kinetic parameters from noisy experimental signals. The work represents a significant advancement in scientific machine learning (SciML), demonstrating how hybrid AI-physics models can scale complex biophysical characterization for disease modeling.
A Physics-Flavored Transformer Network for Parametrizing Contraction Dynamics of Engineered Skeletal Muscle Tissues
arXiv:2608.03927v1 Announce Type: new Abstract: Engineered Skeletal Muscle Tissues (ESMs) have become a key structure for biomedical disease modeling and pharmacological screening, yet their functional characterization often relies on simplistic metrics like peak force, discarding critical kinetic information. This is partially due to the high level of mathematical complexity which mechanistic models introduce to capture these dynamics. Hence, exactly the complexity prevents scalable application and widespread adaptation in the field. Here we present a Physics-Flavored Neural Network (PFNN) that automates the kinetic phenotyping of ESMs. Our architecture integrates a stretched-exponential physical model into a CNN-Transformer, enabling the extraction of physically meaningful parameters directly from force-time profiles. To address the scarcity of labeled biological data, we employ a hybrid training paradigm: the model develops a "physical intuition" on synthetic data before undergoing unsupervised self-alignment on unlabeled real-world measurements. Our results demonstrate that this physics-flavored approach achieves high-fidelity parameterization across diverse contractile phenotypes and cell lines, including Duchenne Muscular Dystrophy models. Our scalable, self-improving pipeline bridges the gap between idealized biophysics and noisy \emph{in vitro} data, providing a robust tool for high-throughput biophysical research.
Abstract:Engineered Skeletal Muscle Tissues (ESMs) have become a key structure for biomedical disease modeling and pharmacological screening, yet their functional characterization often relies on simplistic metrics like peak force, discarding critical kinetic information. This is partially due to the high level of mathematical complexity which mechanistic models introduce to capture these dynamics. Hence, exactly the complexity prevents scalable application and widespread adaptation in the field. Here we present a Physics-Flavored Neural Network (PFNN) that automates the kinetic phenotyping of ESMs. Our architecture integrates a stretched-exponential physical model into a CNN-Transformer, enabling the extraction of physically meaningful parameters directly from force-time profiles. To address the scarcity of labeled biological data, we employ a hybrid training paradigm: the model develops a "physical intuition" on synthetic data before undergoing unsupervised self-alignment on unlabeled real-world measurements. Our results demonstrate that this physics-flavored approach achieves high-fidelity parameterization across diverse contractile phenotypes and cell lines, including Duchenne Muscular Dystrophy models. Our scalable, self-improving pipeline bridges the gap between idealized biophysics and noisy \emph{in vitro} data, providing a robust tool for high-throughput biophysical research.
Machine Learning (cs.LG)
arXiv:2608.03927 [cs.LG]
(or arXiv:2608.03927v1 [cs.LG] for this version)
https://doi.org/10.48550/arXiv.2608.03927 Focus to learn more arXiv-issued DOI via DataCite (pending registration)
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