Structure-Function Dynamics Hybrid Modeling: RNA Degradation

RNA structure and functional dynamics play fundamental roles in controlling biological systems. Molecular dynamic simulations, which can characterize interactions at an atomistic level, can facilitate new drug discovery, manufacturing, and delivery mechanisms. However, it is computationally infeasible to support the development of digital twin for enzymatic reaction network mechanism learning, and end-to-end bioprocess design and control. Thus, we create a hybrid ("mechanistic + machine learning") model characterizing the interdependence of RNA structure and functional dynamics from atomistic to macroscopic levels. To assess the proposed modeling strategy, in this paper, we consider RNA degradation which is a critical process in cellular biology that affects gene expression. The empirical study on RNA lifetime prediction demonstrates the promising performance of the proposed multi-level bioprocess hybrid modeling strategy.