DRL-HNet: A Deep Residual Learning Framework for Microbe-Drug Associations Prediction Using Heterogeneous Network Feature.

Abstract

In the field of biomedicine, predicting microbe-drug associations (MDAs) is crucial for advancing drug discovery and personalized therapy. However, traditional experimental approaches often fall short in meeting requirements for accuracy and scalability. Previous studies have primarily relied on feature similarities to predict microbe-drug associations, largely ignoring the complex interdependencies essential for improved prediction. In this paper, we propose a novel framework named Deep Residual Learning Framework Using Heterogeneous Network Feature (DRL-HNet) for MDAs prediction. DRL-HNet constructs a heterogeneous network representation by integrating relationships and features from multiple data sources for both microbes and drugs. The model incorporates deep residual learning with bottleneck layers to effectively reduce computational complexity while enhancing network expressiveness. Multi-source feature fusion is leveraged to capture complex interaction patterns, while residual connections mitigate overfitting and enhance training efficiency. Extensive cross-validation experiments demonstrate that DRL-HNet outperforms existing models across multiple evaluation metrics, validating its efficacy in accurately predicting microbe-drug associations.