DrKGC: Dynamic Subgraph Retrieval-Augmented LLMs for Knowledge Graph Completion across General and Biomedical Domains

Knowledge graph completion (KGC) aims to predict missing triples in knowledge graphs (KGs) by leveraging existing triples and textual information. Recently, generative large language models (LLMs) have been increasingly employed for graph tasks. However, current approaches typically encode graph context in textual form, which fails to fully exploit the potential of LLMs for perceiving and reasoning about graph structures. To address this limitation, we propose DrKGC (Dynamic Subgraph Retrieval-Augmented LLMs for Knowledge Graph Completion). DrKGC employs a flexible lightweight model training strategy to learn structural embeddings and logical rules within the KG. It then leverages a novel bottom-up graph retrieval method to extract a subgraph for each query guided by the learned rules. Finally, a graph convolutional network (GCN) adapter uses the retrieved subgraph to enhance the structural embeddings, which are then integrated into the prompt for effective LLM fine-tuning. Experimental results on two general domain benchmark datasets and two biomedical datasets demonstrate the superior performance of DrKGC. Furthermore, a realistic case study in the biomedical domain highlights its interpretability and practical utility.

@article{xiao2025_2506.00708,
  title={ DrKGC: Dynamic Subgraph Retrieval-Augmented LLMs for Knowledge Graph Completion across General and Biomedical Domains },
  author={ Yongkang Xiao and Sinian Zhang and Yi Dai and Huixue Zhou and Jue Hou and Jie Ding and Rui Zhang },
  journal={arXiv preprint arXiv:2506.00708},
  year={ 2025 }
}