Hao Li

Juntong Wu, Zijing Liu, He Cao et al.

In recent years, protein-text models have gained significant attention for their potential in protein generation and understanding. Current approaches focus on integrating protein-related knowledge into large language models through continued pretraining and multi-modal alignment, enabling simultaneous comprehension of textual descriptions and protein sequences. Through a thorough analysis of existing model architectures and text-based protein understanding benchmarks, we identify significant data leakage issues present in current benchmarks. Moreover, conventional metrics derived from natural language processing fail to accurately assess the model's performance in this domain. To address these limitations, we reorganize existing datasets and introduce a novel evaluation framework based on biological entities. Motivated by our observation, we propose a retrieval-enhanced method, which significantly outperforms fine-tuned LLMs for protein-to-text generation and shows accuracy and efficiency in training-free scenarios. Our code and data can be seen at https://github.com/IDEA-XL/RAPM.

Mengjia Niu, Hao Li, Jie Shi et al.

Large language models (LLMs) have demonstrated remarkable capabilities across various domains, although their susceptibility to hallucination poses significant challenges for their deployment in critical areas such as healthcare. To address this issue, retrieving relevant facts from knowledge graphs (KGs) is considered a promising method. Existing KG-augmented approaches tend to be resource-intensive, requiring multiple rounds of retrieval and verification for each factoid, which impedes their application in real-world scenarios. In this study, we propose Self-Refinement-Enhanced Knowledge Graph Retrieval (Re-KGR) to augment the factuality of LLMs' responses with less retrieval efforts in the medical field. Our approach leverages the attribution of next-token predictive probability distributions across different tokens, and various model layers to primarily identify tokens with a high potential for hallucination, reducing verification rounds by refining knowledge triples associated with these tokens. Moreover, we rectify inaccurate content using retrieved knowledge in the post-processing stage, which improves the truthfulness of generated responses. Experimental results on a medical dataset demonstrate that our approach can enhance the factual capability of LLMs across various foundational models as evidenced by the highest scores on truthfulness.