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bioRxiv · 10.1101/2024.01.01.573840

Integrating Residual Networks and Symbolic Regression for Biological ODE System Modeling

Yi, Z.
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Abstract

Traditional biological research heavily relies on experimental methodologies, which often lead to inefficiencies in communication and knowledge transfer. These methodologies frequently result in redundant trial-and-error experiments, posing challenges in standardizing results and impeding rapid knowledge dissemination. The complexity of biological systems and the sheer volume of experimental data generate a demand for precise mathematical models like Ordinary Differential Equations (ODEs) to articulate biological interactions. However, practical implementation of ODE-based models is hampered by their need for data curation, making them less feasible for everyday research applications. To address these limitations, we introduce LazyNet, a novel computational model that employs logarithmic and exponential functions embedded within a Residual Network (ResNet) architecture to approximate ODEs. LazyNet simplifies complex mathematical operations, reducing the dependency on large datasets and extensive computational resources. This study tests LazyNet across various biological scenarios, including HIV dynamics, gene regulatory networks, and mass spectrometry analysis of small molecules. Our results demonstrate that LazyNet can efficiently assimilate and predict complex biological processes, significantly enhancing model training speed and reducing the reliance on empirical experimentation. Therefore, a promising tool for advancing biological research and fostering more accurate and efficient scientific explorations.

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Yi, Z.. 2024-01-04. Integrating Residual Networks and Symbolic Regression for Biological ODE System Modeling. https://doi.org/10.1101/2024.01.01.573840

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