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arXiv 2502.02129cs.LGq-bio.QM
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深度神经细胞波茨模型

Deep Neural Cellular Potts Models

Eindhoven University of Technology(埃因霍温理工大学);TUD Dresden University of Technology(德累斯顿工业大学)

Koen Minartz, Tim d'Hondt, Leon Hillmann, Jörn Starruß, Lutz Brusch, Vlado Menkovski

AI总结:

本文提出NeuralCPM,通过可训练的神经哈密顿量替代传统解析哈密顿量,在尊重集体细胞动力学对称性的同时融合领域知识,从而直接从观测数据中建模传统方法无法解释的多细胞动态。

摘要:

细胞波茨模型(CPM)是一种用于模拟生物细胞集体时空动态的强大计算方法。为了驱动这些动态,CPM依赖受物理学启发的哈密顿量。然而,由于生物学中的第一性原理仍然难以捉摸,这些哈密顿量只能近似真实多细胞系统的全部复杂性。为了解决这一局限,我们提出了NeuralCPM,一种更具表达力的细胞波茨模型,可以直接在观测数据上进行训练。NeuralCPM的核心是神经哈密顿量,这是一种神经网络架构,尊重集体细胞动力学中的普遍对称性。此外,该方法通过将已知生物机制与表达性神经哈密顿量结合成混合模型,实现了领域知识的无缝整合。我们对合成和真实多细胞系统的评估表明,NeuralCPM能够建模传统解析哈密顿量无法解释的细胞动力学。

英文摘要:

The cellular Potts model (CPM) is a powerful computational method for simulating collective spatiotemporal dynamics of biological cells. To drive the dynamics, CPMs rely on physics-inspired Hamiltonians. However, as first principles remain elusive in biology, these Hamiltonians only approximate the full complexity of real multicellular systems. To address this limitation, we propose NeuralCPM, a more expressive cellular Potts model that can be trained directly on observational data. At the core of NeuralCPM lies the Neural Hamiltonian, a neural network architecture that respects universal symmetries in collective cellular dynamics. Moreover, this approach enables seamless integration of domain knowledge by combining known biological mechanisms and the expressive Neural Hamiltonian into a hybrid model. Our evaluation with synthetic and real-world multicellular systems demonstrates that NeuralCPM is able to model cellular dynamics that cannot be accounted for by traditional analytical Hamiltonians.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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