Rui Yang

Rui Yang, Qingcheng Zeng, Keen You et al.

This study introduces Ascle, a pioneering natural language processing (NLP) toolkit designed for medical text generation. Ascle is tailored for biomedical researchers and healthcare professionals with an easy-to-use, all-in-one solution that requires minimal programming expertise. For the first time, Ascle evaluates and provides interfaces for the latest pre-trained language models, encompassing four advanced and challenging generative functions: question-answering, text summarization, text simplification, and machine translation. In addition, Ascle integrates 12 essential NLP functions, along with query and search capabilities for clinical databases. The toolkit, its models, and associated data are publicly available via https://github.com/Yale-LILY/MedGen.

Rui Yang, Edison Marrese-Taylor, Yuhe Ke et al.

Large language models (LLMs) have demonstrated powerful text generation capabilities, bringing unprecedented innovation to the healthcare field. While LLMs hold immense promise for applications in healthcare, applying them to real clinical scenarios presents significant challenges, as these models may generate content that deviates from established medical facts and even exhibit potential biases. In our research, we develop an augmented LLM framework based on the Unified Medical Language System (UMLS), aiming to better serve the healthcare community. We employ LLaMa2-13b-chat and ChatGPT-3.5 as our benchmark models, and conduct automatic evaluations using the ROUGE Score and BERTScore on 104 questions from the LiveQA test set. Additionally, we establish criteria for physician-evaluation based on four dimensions: Factuality, Completeness, Readability and Relevancy. ChatGPT-3.5 is used for physician evaluation with 20 questions on the LiveQA test set. Multiple resident physicians conducted blind reviews to evaluate the generated content, and the results indicate that this framework effectively enhances the factuality, completeness, and relevance of generated content. Our research demonstrates the effectiveness of using UMLS-augmented LLMs and highlights the potential application value of LLMs in in medical question-answering.

Mianchu Wang, Rui Yang, Xi Chen et al.

Offline Goal-Conditioned RL (GCRL) offers a feasible paradigm for learning general-purpose policies from diverse and multi-task offline datasets. Despite notable recent progress, the predominant offline GCRL methods, mainly model-free, face constraints in handling limited data and generalizing to unseen goals. In this work, we propose Goal-conditioned Offline Planning (GOPlan), a novel model-based framework that contains two key phases: (1) pretraining a prior policy capable of capturing multi-modal action distribution within the multi-goal dataset; (2) employing the reanalysis method with planning to generate imagined trajectories for funetuning policies. Specifically, we base the prior policy on an advantage-weighted conditioned generative adversarial network, which facilitates distinct mode separation, mitigating the pitfalls of out-of-distribution (OOD) actions. For further policy optimization, the reanalysis method generates high-quality imaginary data by planning with learned models for both intra-trajectory and inter-trajectory goals. With thorough experimental evaluations, we demonstrate that GOPlan achieves state-of-the-art performance on various offline multi-goal navigation and manipulation tasks. Moreover, our results highlight the superior ability of GOPlan to handle small data budgets and generalize to OOD goals.

Rui Yang, Boming Yang, Sixun Ouyang et al.

Knowledge graphs (KGs) are crucial in the field of artificial intelligence and are widely applied in downstream tasks, such as enhancing Question Answering (QA) systems. The construction of KGs typically requires significant effort from domain experts. Recently, Large Language Models (LLMs) have been used for knowledge graph construction (KGC), however, most existing approaches focus on a local perspective, extracting knowledge triplets from individual sentences or documents. In this work, we introduce Graphusion, a zero-shot KGC framework from free text. The core fusion module provides a global view of triplets, incorporating entity merging, conflict resolution, and novel triplet discovery. We showcase how Graphusion could be applied to the natural language processing (NLP) domain and validate it in the educational scenario. Specifically, we introduce TutorQA, a new expert-verified benchmark for graph reasoning and QA, comprising six tasks and a total of 1,200 QA pairs. Our evaluation demonstrates that Graphusion surpasses supervised baselines by up to 10% in accuracy on link prediction. Additionally, it achieves average scores of 2.92 and 2.37 out of 3 in human evaluations for concept entity extraction and relation recognition, respectively.

Rui Yang, Jiahao Zhu, Jianping Man et al.

Knowledge graph completion (KGC) focuses on identifying missing triples in a knowledge graph (KG) , which is crucial for many downstream applications. Given the rapid development of large language models (LLMs), some LLM-based methods are proposed for KGC task. However, most of them focus on prompt engineering while overlooking the fact that finer-grained subgraph information can aid LLMs in generating more accurate answers. In this paper, we propose a novel completion framework called \textbf{G}enerative \textbf{S}ubgraph-based KGC (GS-KGC), which utilizes subgraph information as contextual reasoning and employs a QA approach to achieve the KGC task. This framework primarily includes a subgraph partitioning algorithm designed to generate negatives and neighbors. Specifically, negatives can encourage LLMs to generate a broader range of answers, while neighbors provide additional contextual insights for LLM reasoning. Furthermore, we found that GS-KGC can discover potential triples within the KGs and new facts beyond the KGs. Experiments conducted on four common KGC datasets highlight the advantages of the proposed GS-KGC, e.g., it shows a 5.6\% increase in Hits@3 compared to the LLM-based model CP-KGC on the FB15k-237N, and a 9.3\% increase over the LLM-based model TECHS on the ICEWS14.

Rui Yang

This paper presents CaseGPT, an innovative approach that combines Large Language Models (LLMs) and Retrieval-Augmented Generation (RAG) technology to enhance case-based reasoning in the healthcare and legal sectors. The system addresses the challenges of traditional database queries by enabling fuzzy searches based on imprecise descriptions, thereby improving data searchability and usability. CaseGPT not only retrieves relevant case data but also generates insightful suggestions and recommendations based on patterns discerned from existing case data. This functionality proves especially valuable for tasks such as medical diagnostics, legal precedent research, and case strategy formulation. The paper includes an in-depth discussion of the system's methodology, its performance in both medical and legal domains, and its potential for future applications. Our experiments demonstrate that CaseGPT significantly outperforms traditional keyword-based and simple LLM-based systems in terms of precision, recall, and efficiency.

Rui Yang, Haoran Liu, Edison Marrese-Taylor et al.

Large language models (LLMs) have demonstrated impressive generative capabilities with the potential to innovate in medicine. However, the application of LLMs in real clinical settings remains challenging due to the lack of factual consistency in the generated content. In this work, we develop an augmented LLM framework, KG-Rank, which leverages a medical knowledge graph (KG) along with ranking and re-ranking techniques, to improve the factuality of long-form question answering (QA) in the medical domain. Specifically, when receiving a question, KG-Rank automatically identifies medical entities within the question and retrieves the related triples from the medical KG to gather factual information. Subsequently, KG-Rank innovatively applies multiple ranking techniques to refine the ordering of these triples, providing more relevant and precise information for LLM inference. To the best of our knowledge, KG-Rank is the first application of KG combined with ranking models in medical QA specifically for generating long answers. Evaluation on four selected medical QA datasets demonstrates that KG-Rank achieves an improvement of over 18% in ROUGE-L score. Additionally, we extend KG-Rank to open domains, including law, business, music, and history, where it realizes a 14% improvement in ROUGE-L score, indicating the effectiveness and great potential of KG-Rank.

Weihao Xuan, Rui Yang, Heli Qi et al.

Existing large language model (LLM) evaluation benchmarks primarily focus on English, while current multilingual tasks lack parallel questions that specifically assess cross-linguistic reasoning abilities. This dual limitation makes it challenging to comprehensively assess LLMs' performance in the multilingual setting. To fill this gap, we introduce MMLU-ProX, a comprehensive benchmark covering 29 languages, built on an English benchmark. Each language version consists of 11,829 identical questions, enabling direct cross-linguistic comparisons. Additionally, to meet efficient evaluation needs, we provide a lite version containing 658 questions per language. To ensure the high quality of MMLU-ProX, we employ a rigorous development process that involves multiple powerful LLMs for translation, followed by expert review to ensure accurate expression, consistent terminology, and cultural relevance. Building on this, we systematically evaluate 36 state-of-the-art LLMs, including reasoning-enhanced and multilingual-optimized LLMs. The results reveal significant disparities in the multilingual capabilities of LLMs: While they perform well in high-resource languages, their performance declines markedly in low-resource languages, with gaps of up to 24.3%. Through MMLU-ProX, we aim to advance the development of more inclusive AI systems and promote equitable access to technology across global contexts.

Rui Yang, Boming Yang, Aosong Feng et al.

Knowledge Graphs (KGs) are crucial in the field of artificial intelligence and are widely used in downstream tasks, such as question-answering (QA). The construction of KGs typically requires significant effort from domain experts. Large Language Models (LLMs) have recently been used for Knowledge Graph Construction (KGC). However, most existing approaches focus on a local perspective, extracting knowledge triplets from individual sentences or documents, missing a fusion process to combine the knowledge in a global KG. This work introduces Graphusion, a zero-shot KGC framework from free text. It contains three steps: in Step 1, we extract a list of seed entities using topic modeling to guide the final KG includes the most relevant entities; in Step 2, we conduct candidate triplet extraction using LLMs; in Step 3, we design the novel fusion module that provides a global view of the extracted knowledge, incorporating entity merging, conflict resolution, and novel triplet discovery. Results show that Graphusion achieves scores of 2.92 and 2.37 out of 3 for entity extraction and relation recognition, respectively. Moreover, we showcase how Graphusion could be applied to the Natural Language Processing (NLP) domain and validate it in an educational scenario. Specifically, we introduce TutorQA, a new expert-verified benchmark for QA, comprising six tasks and a total of 1,200 QA pairs. Using the Graphusion-constructed KG, we achieve a significant improvement on the benchmark, for example, a 9.2% accuracy improvement on sub-graph completion.

Rui Yang, Boming Yang, Sixun Ouyang et al.

In the domain of Natural Language Processing (NLP), Large Language Models (LLMs) have demonstrated promise in text-generation tasks. However, their educational applications, particularly for domain-specific queries, remain underexplored. This study investigates LLMs' capabilities in educational scenarios, focusing on concept graph recovery and question-answering (QA). We assess LLMs' zero-shot performance in creating domain-specific concept graphs and introduce TutorQA, a new expert-verified NLP-focused benchmark for scientific graph reasoning and QA. TutorQA consists of five tasks with 500 QA pairs. To tackle TutorQA queries, we present CGLLM, a pipeline integrating concept graphs with LLMs for answering diverse questions. Our results indicate that LLMs' zero-shot concept graph recovery is competitive with supervised methods, showing an average 3% F1 score improvement. In TutorQA tasks, LLMs achieve up to 26% F1 score enhancement. Moreover, human evaluation and analysis show that CGLLM generates answers with more fine-grained concepts.

Yingjian Chen, Haoran Liu, Yinhong Liu et al.

Large language models (LLMs) are widely used, but they often generate subtle factual errors, especially in long-form text. These errors are fatal in some specialized domains such as medicine. Existing fact-checking with grounding documents methods face two main challenges: (1) they struggle to understand complex multihop relations in long documents, often overlooking subtle factual errors; (2) most specialized methods rely on pairwise comparisons, requiring multiple model calls, leading to high resource and computational costs. To address these challenges, we propose GraphCheck, a fact-checking framework that uses extracted knowledge graphs to enhance text representation. Graph Neural Networks further process these graphs as a soft prompt, enabling LLMs to incorporate structured knowledge more effectively. Enhanced with graph-based reasoning, GraphCheck captures multihop reasoning chains that are often overlooked by existing methods, enabling precise and efficient fact-checking in a single inference call. Experimental results on seven benchmarks spanning both general and medical domains demonstrate up to a 7.1% overall improvement over baseline models. Notably, GraphCheck outperforms existing specialized fact-checkers and achieves comparable performance with state-of-the-art LLMs, such as DeepSeek-V3 and OpenAI-o1, with significantly fewer parameters.

Feiyang Li, Yingjian Chen, Haoran Liu et al.

Large Language Models (LLMs) have shown remarkable progress in medical question answering (QA), yet their effectiveness remains predominantly limited to English due to imbalanced multilingual training data and scarce medical resources for low-resource languages. To address this critical language gap in medical QA, we propose Multilingual Knowledge Graph-based Retrieval Ranking (MKG-Rank), a knowledge graph-enhanced framework that enables English-centric LLMs to perform multilingual medical QA. Through a word-level translation mechanism, our framework efficiently integrates comprehensive English-centric medical knowledge graphs into LLM reasoning at a low cost, mitigating cross-lingual semantic distortion and achieving precise medical QA across language barriers. To enhance efficiency, we introduce caching and multi-angle ranking strategies to optimize the retrieval process, significantly reducing response times and prioritizing relevant medical knowledge. Extensive evaluations on multilingual medical QA benchmarks across Chinese, Japanese, Korean, and Swahili demonstrate that MKG-Rank consistently outperforms zero-shot LLMs, achieving maximum 35.03% increase in accuracy, while maintaining an average retrieval time of only 0.0009 seconds.

Sherzod Hakimov, Roland Bernard, Tim Leiber et al.

Negotiation is a fundamental challenge for AI agents, as it requires an ability to reason strategically, model opponents, and balance cooperation with competition. We conduct the first comprehensive study systematically evaluating the effect of (LLM-)reasoning on the negotiation abilities of both commercial and open-weight LLMs, and do this across three languages. Using a self-play setup across three diverse dialogue games, we analyse trade-offs between performance and cost, the language consistency of reasoning processes, and the nature of strategic adaptation exhibited by models. Our findings show that enabling reasoning-that is, scaling test time compute-significantly improves negotiation outcomes by enhancing collaboration and helping models overcome task complexities, but comes at a substantial computational cost: reasoning improves GPT-5's performance by 31.4 % while increasing its cost by nearly 400 %. Most critically, we uncover a significant multilingual reasoning distinction: open-weight models consistently switch to English for their internal reasoning steps, even when negotiating in German or Italian (and thus possibly impacting potential explainability gains through the disclosure of reasoning traces), while leading commercial models maintain language consistency between their reasoning and final output.

Yu He Ke, Rui Yang, Sui An Lie et al.

Background: Cognitive biases in clinical decision-making significantly contribute to errors in diagnosis and suboptimal patient outcomes. Addressing these biases presents a formidable challenge in the medical field. Objective: This study explores the role of large language models (LLMs) in mitigating these biases through the utilization of a multi-agent framework. We simulate the clinical decision-making processes through multi-agent conversation and evaluate its efficacy in improving diagnostic accuracy. Methods: A total of 16 published and unpublished case reports where cognitive biases have resulted in misdiagnoses were identified from the literature. In the multi-agent framework, we leveraged GPT-4 to facilitate interactions among four simulated agents to replicate clinical team dynamics. Each agent has a distinct role: 1) To make the final diagnosis after considering the discussions, 2) The devil's advocate and correct confirmation and anchoring bias, 3) The tutor and facilitator of the discussion to reduce premature closure bias, and 4) To record and summarize the findings. A total of 80 simulations were evaluated for the accuracy of initial diagnosis, top differential diagnosis and final two differential diagnoses. Results: In a total of 80 responses evaluating both initial and final diagnoses, the initial diagnosis had an accuracy of 0% (0/80), but following multi-agent discussions, the accuracy for the top differential diagnosis increased to 71.3% (57/80), and for the final two differential diagnoses, to 80.0% (64/80). Conclusions: The framework demonstrated an ability to re-evaluate and correct misconceptions, even in scenarios with misleading initial investigations. The LLM-driven multi-agent conversation framework shows promise in enhancing diagnostic accuracy in diagnostically challenging medical scenarios.