Irene Li

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.

Fan Gao, Hang Jiang, Rui Yang et al. · mit

Educational materials such as survey articles in specialized fields like computer science traditionally require tremendous expert inputs and are therefore expensive to create and update. Recently, Large Language Models (LLMs) have achieved significant success across various general tasks. However, their effectiveness and limitations in the education domain are yet to be fully explored. In this work, we examine the proficiency of LLMs in generating succinct survey articles specific to the niche field of NLP in computer science, focusing on a curated list of 99 topics. Automated benchmarks reveal that GPT-4 surpasses its predecessors, inluding GPT-3.5, PaLM2, and LLaMa2 by margins ranging from 2% to 20% in comparison to the established ground truth. We compare both human and GPT-based evaluation scores and provide in-depth analysis. While our findings suggest that GPT-created surveys are more contemporary and accessible than human-authored ones, certain limitations were observed. Notably, GPT-4, despite often delivering outstanding content, occasionally exhibited lapses like missing details or factual errors. At last, we compared the rating behavior between humans and GPT-4 and found systematic bias in using GPT evaluation.

Yue Xun, Junyu Liu, Qian Niu et al.

We introduce JMed48k, a multi-profession Japanese healthcare licensing benchmark for evaluating vision-language models. Built from official PDF materials released by the Japanese Ministry of Health, Labour and Welfare, JMed48k contains 48,862 exam questions and 20,142 images from 11 national licensing examinations between 2005 and 2025, with visual content annotated under an 8-type taxonomy. From this corpus, we derive JMed48k-Eval, a recent five-year evaluation subset with 12,484 scored questions, including 9,905 text-only questions and 2,579 questions with images. We evaluate 21 proprietary, open-source, and medical-specific models, reporting text-only and with-image performance separately. Because these subsets contain different questions, we further introduce a paired image-removal audit that evaluates questions with images before and after removing visual content to explore four answer-transition states. The audit shows that proprietary and open source models gain substantially from images, whereas medical-specific systems show limited observable use of visual evidence, with many correct answers persisting after image removal. Even among proprietary models, the net image-removal effect varies sevenfold across professions, from +5.7 points on Physician questions to +39.8 points on Public Health Nurse questions. We release JMed48k to support reproducible, profession-stratified evaluation of vision-language models in medical licensing settings.

Linxin Song, Jieyu Zhang, Lechao Cheng et al. · uw

Recent developments in large language models (LLMs) have shown promise in enhancing the capabilities of natural language processing (NLP). Despite these successes, there remains a dearth of research dedicated to the NLP problem-solving abilities of LLMs. To fill the gap in this area, we present a unique benchmarking dataset, NLPBench, comprising 378 college-level NLP questions spanning various NLP topics sourced from Yale University's prior final exams. NLPBench includes questions with context, in which multiple sub-questions share the same public information, and diverse question types, including multiple choice, short answer, and math. Our evaluation, centered on LLMs such as GPT-3.5/4, PaLM-2, and LLAMA-2, incorporates advanced prompting strategies like the chain-of-thought (CoT) and tree-of-thought (ToT). Our study reveals that the effectiveness of the advanced prompting strategies can be inconsistent, occasionally damaging LLM performance, especially in smaller models like the LLAMA-2 (13b). Furthermore, our manual assessment illuminated specific shortcomings in LLMs' scientific problem-solving skills, with weaknesses in logical decomposition and reasoning notably affecting results.

Irene Li, Keen You, Yujie Qiao et al.

The Electronic Health Record (EHR) is an essential part of the modern medical system and impacts healthcare delivery, operations, and research. Unstructured text is attracting much attention despite structured information in the EHRs and has become an exciting research field. The success of the recent neural Natural Language Processing (NLP) method has led to a new direction for processing unstructured clinical notes. In this work, we create a python library for clinical texts, EHRKit. This library contains two main parts: MIMIC-III-specific functions and tasks specific functions. The first part introduces a list of interfaces for accessing MIMIC-III NOTEEVENTS data, including basic search, information retrieval, and information extraction. The second part integrates many third-party libraries for up to 12 off-shelf NLP tasks such as named entity recognition, summarization, machine translation, etc.

Xiaojie Gu, Sherry T. Tong, Aosong Feng et al.

Reasoning-focused large language models (LLMs) have advanced in many NLP tasks, yet their evaluation remains challenging: final answers alone do not expose the intermediate reasoning steps, making it difficult to determine whether a model truly reasons correctly and where failures occur, while existing multi-hop QA benchmarks lack step-level annotations for diagnosing reasoning failures. To address this gap, we propose Omanic, an open-domain multi-hop QA resource that provides decomposed sub-questions and intermediate answers as structural annotations for analyzing reasoning processes. It contains 10,296 machine-generated training examples (OmanicSynth) and 967 expert-reviewed human-annotated evaluation examples (OmanicBench). Systematic evaluations show that state-of-the-art LLMs achieve only 73.11% multiple-choice accuracy on OmanicBench, confirming its high difficulty. Stepwise analysis reveals that CoT's performance hinges on factual completeness, with its gains diminishing under knowledge gaps and errors amplifying in later hops. Additionally, supervised fine-tuning on OmanicSynth brings substantial transfer gains (7.41 average points) across six reasoning and math benchmarks, validating the dataset's quality and further supporting the effectiveness of OmanicSynth as supervision for reasoning-capability transfer. We release the data at https://huggingface.co/datasets/li-lab/Omanic and the code at https://github.com/XiaojieGu/Omanic.

Boming Yang, Dairui Liu, Toyotaro Suzumura et al.

Precisely recommending candidate news articles to users has always been a core challenge for personalized news recommendation systems. Most recent works primarily focus on using advanced natural language processing techniques to extract semantic information from rich textual data, employing content-based methods derived from local historical news. However, this approach lacks a global perspective, failing to account for users' hidden motivations and behaviors beyond semantic information. To address this challenge, we propose a novel model called GLORY (Global-LOcal news Recommendation sYstem), which combines global representations learned from other users with local representations to enhance personalized recommendation systems. We accomplish this by constructing a Global-aware Historical News Encoder, which includes a global news graph and employs gated graph neural networks to enrich news representations, thereby fusing historical news representations by a historical news aggregator. Similarly, we extend this approach to a Global Candidate News Encoder, utilizing a global entity graph and a candidate news aggregator to enhance candidate news representation. Evaluation results on two public news datasets demonstrate that our method outperforms existing approaches. Furthermore, our model offers more diverse recommendations.

Aosong Feng, Irene Li, Yuang Jiang et al.

Efficient Transformers have been developed for long sequence modeling, due to their subquadratic memory and time complexity. Sparse Transformer is a popular approach to improving the efficiency of Transformers by restricting self-attention to locations specified by the predefined sparse patterns. However, leveraging sparsity may sacrifice expressiveness compared to full-attention, when important token correlations are multiple hops away. To combine advantages of both the efficiency of sparse transformer and the expressiveness of full-attention Transformer, we propose \textit{Diffuser}, a new state-of-the-art efficient Transformer. Diffuser incorporates all token interactions within one attention layer while maintaining low computation and memory costs. The key idea is to expand the receptive field of sparse attention using Attention Diffusion, which computes multi-hop token correlations based on all paths between corresponding disconnected tokens, besides attention among neighboring tokens. Theoretically, we show the expressiveness of Diffuser as a universal sequence approximator for sequence-to-sequence modeling, and investigate its ability to approximate full-attention by analyzing the graph expander property from the spectral perspective. Experimentally, we investigate the effectiveness of Diffuser with extensive evaluations, including language modeling, image modeling, and Long Range Arena (LRA). Evaluation results show that Diffuser achieves improvements by an average of 0.94% on text classification tasks and 2.30% on LRA, with 1.67$\times$ memory savings compared to state-of-the-art benchmarks, which demonstrates superior performance of Diffuser in both expressiveness and efficiency aspects.

Irene Li, Boming Yang

Knowledge graph completion (KGC) aims to discover missing relations of query entities. Current text-based models utilize the entity name and description to infer the tail entity given the head entity and a certain relation. Existing approaches also consider the neighborhood of the head entity. However, these methods tend to model the neighborhood using a flat structure and are only restricted to 1-hop neighbors. In this work, we propose a node neighborhood-enhanced framework for knowledge graph completion. It models the head entity neighborhood from multiple hops using graph neural networks to enrich the head node information. Moreover, we introduce an additional edge link prediction task to improve KGC. Evaluation on two public datasets shows that this framework is simple yet effective. The case study also shows that the model is able to predict explainable predictions.

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.

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, Huitao Li, Weihao Xuan et al.

Despite continuous advances in medical technology, the global distribution of health care resources remains uneven. The development of large language models (LLMs) has transformed the landscape of medicine and holds promise for improving health care quality and expanding access to medical information globally. However, existing LLMs are primarily trained on high-resource languages, limiting their applicability in global medical scenarios. To address this gap, we constructed GlobMed, a large multilingual medical dataset, containing over 500,000 entries spanning 12 languages, including four low-resource languages. Building on this, we established GlobMed-Bench, which systematically assesses 56 state-of-the-art proprietary and open-weight LLMs across multiple multilingual medical tasks, revealing significant performance disparities across languages, particularly for low-resource languages. Additionally, we introduced GlobMed-LLMs, a suite of multilingual medical LLMs trained on GlobMed, with parameters ranging from 1.7B to 8B. GlobMed-LLMs achieved an average performance improvement of over 40% relative to baseline models, with a more than threefold increase in performance on low-resource languages. Together, these resources provide an important foundation for advancing the equitable development and application of LLMs globally, enabling broader language communities to benefit from technological advances.

Tianyu Liu, Weihao Xuan, Hao Wu et al.

Advances in AI have introduced several strong models in computational pathology to usher it into the era of multi-modal diagnosis, analysis, and interpretation. However, the current pathology-specific visual language models still lack capacities in making the diagnosis with rigorous reasoning paths as well as handling divergent tasks, and thus, challenges of building AI Copilots for real scenarios still exist. Here we introduce TeamPath, an AI system powered by reinforcement learning and router-enhanced solutions based on large-scale histopathology multimodal datasets, to work as a virtual assistant for expert-level disease diagnosis, patch-level information summarization, and cross-modality generation to integrate transcriptomic information for clinical usage. We also collaborate with pathologists from Yale School of Medicine to demonstrate that TeamPath can assist them in working more efficiently by identifying and correcting expert conclusions and reasoning paths. We also discuss the human evaluation results to support the reasoning quality from TeamPath. Overall, TeamPath can flexibly choose the best settings according to the needs, and serve as an innovative and reliable system for information communication across different modalities and experts.

Yingjian Chen, Haoran Liu, Yinhong Liu et al.

Large Language Models (LLMs) show strong reasoning ability in open-domain question answering, yet their reasoning processes are typically linear and often logically inconsistent. In contrast, real-world reasoning requires integrating multiple premises and solving subproblems in parallel. Existing methods, such as Chain-of-Thought (CoT), express reasoning in a linear textual form, which may appear coherent but frequently leads to inconsistent conclusions. Recent approaches rely on externally provided graphs and do not explore how LLMs can construct and use their own graph-structured reasoning, particularly in open-domain QA. To fill this gap, we novelly explore graph-structured reasoning of LLMs in general-domain question answering. We propose Self-Graph Reasoning (SGR), a framework that enables LLMs to explicitly represent their reasoning process as a structured graph before producing the final answer. We further construct a graph-structured reasoning dataset that merges multiple candidate reasoning graphs into refined graph structures for model training. Experiments on five QA benchmarks across both general and specialized domains show that SGR consistently improves reasoning consistency and yields a 17.74% gain over the base model. The LLaMA-3.3-70B model fine-tuned with SGR performs comparably to GPT-4o and surpasses Claude-3.5-Haiku, demonstrating the effectiveness of graph-structured reasoning.

Xinjie Zhao, Moritz Blum, Fan Gao et al.

AGENTiGraph is a user-friendly, agent-driven system that enables intuitive interaction and management of domain-specific data through the manipulation of knowledge graphs in natural language. It gives non-technical users a complete, visual solution to incrementally build and refine their knowledge bases, allowing multi-round dialogues and dynamic updates without specialized query languages. The flexible design of AGENTiGraph, including intent classification, task planning, and automatic knowledge integration, ensures seamless reasoning between diverse tasks. Evaluated on a 3,500-query benchmark within an educational scenario, the system outperforms strong zero-shot baselines (achieving 95.12% classification accuracy, 90.45% execution success), indicating potential scalability to compliance-critical or multi-step queries in legal and medical domains, e.g., incorporating new statutes or research on the fly. Our open-source demo offers a powerful new paradigm for multi-turn enterprise knowledge management that bridges LLMs and structured graphs.

Fan Gao, Sherry T. Tong, Jiwoong Sohn et al.

While reasoning-enhanced large language models perform strongly on English medical tasks, a persistent multilingual gap remains, with substantially weaker reasoning in local languages, limiting equitable global medical deployment. To bridge this gap, we introduce Med-CoReasoner, a language-informed co-reasoning framework that elicits parallel English and local-language reasoning, abstracts them into structured concepts, and integrates local clinical knowledge into an English logical scaffold via concept-level alignment and retrieval. This design combines the structural robustness of English reasoning with the practice-grounded expertise encoded in local languages. To evaluate multilingual medical reasoning beyond multiple-choice settings, we construct MultiMed-X, a benchmark covering seven languages with expert-annotated long-form question answering and natural language inference tasks, comprising 350 instances per language. Experiments across three benchmarks show that Med-CoReasoner improves multilingual reasoning performance by an average of 5%, with particularly substantial gains in low-resource languages. Moreover, model distillation and expert evaluation analysis further confirm that Med-CoReasoner produces clinically sound and culturally grounded reasoning traces.

Kunyu Yu, Rui Yang, Jingchi Liao et al.

Foundation models have emerged as a powerful approach for processing electronic health records (EHRs), offering flexibility to handle diverse medical data modalities. In this study, we present a comprehensive benchmark that evaluates the performance, fairness, and interpretability of foundation models, both as unimodal encoders and as multimodal learners, using the publicly available MIMIC-IV database. To support consistent and reproducible evaluation, we developed a standardized data processing pipeline that harmonizes heterogeneous clinical records into an analysis-ready format. We systematically compared eight foundation models, encompassing both unimodal and multimodal models, as well as domain-specific and general-purpose variants. Our findings demonstrate that incorporating multiple data modalities leads to consistent improvements in predictive performance without introducing additional bias. Through this benchmark, we aim to support the development of effective and trustworthy multimodal artificial intelligence (AI) systems for real-world clinical applications. Our code is available at https://github.com/nliulab/MIMIC-Multimodal.

Yingjian Chen, Feiyang Li, Xingyu Song et al.

Large language models (LLMs) perform well in medical QA, but their effectiveness in Japanese contexts is limited due to privacy constraints that prevent the use of commercial models like GPT-4 in clinical settings. As a result, recent efforts focus on instruction-tuning open-source LLMs, though the potential of combining them with retrieval-augmented generation (RAG) remains underexplored. To bridge this gap, we are the first to explore a knowledge graph-based (KG) RAG framework for Japanese medical QA small-scale open-source LLMs. Experimental results show that KG-based RAG has only a limited impact on Japanese medical QA using small-scale open-source LLMs. Further case studies reveal that the effectiveness of the RAG is sensitive to the quality and relevance of the external retrieved content. These findings offer valuable insights into the challenges and potential of applying RAG in Japanese medical QA, while also serving as a reference for other low-resource languages.

Linxin Song, Yan Cui, Ao Luo et al.

Transformer-based models excel in various natural language processing (NLP) tasks, attracting countless efforts to explain their inner workings. Prior methods explain Transformers by focusing on the raw gradient and attention as token attribution scores, where non-relevant information is often considered during explanation computation, resulting in confusing results. In this work, we propose highlighting the important information and eliminating irrelevant information by a refined information flow on top of the layer-wise relevance propagation (LRP) method. Specifically, we consider identifying syntactic and positional heads as important attention heads and focus on the relevance obtained from these important heads. Experimental results demonstrate that irrelevant information does distort output attribution scores and then should be masked during explanation computation. Compared to eight baselines on both classification and question-answering datasets, our method consistently outperforms with over 3\% to 33\% improvement on explanation metrics, providing superior explanation performance. Our anonymous code repository is available at: https://github.com/LinxinS97/Mask-LRP

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.

Hang Jiang, Xiajie Zhang, Robert Mahari et al. · allen-ai

Making legal knowledge accessible to non-experts is crucial for enhancing general legal literacy and encouraging civic participation in democracy. However, legal documents are often challenging to understand for people without legal backgrounds. In this paper, we present a novel application of large language models (LLMs) in legal education to help non-experts learn intricate legal concepts through storytelling, an effective pedagogical tool in conveying complex and abstract concepts. We also introduce a new dataset LegalStories, which consists of 294 complex legal doctrines, each accompanied by a story and a set of multiple-choice questions generated by LLMs. To construct the dataset, we experiment with various LLMs to generate legal stories explaining these concepts. Furthermore, we use an expert-in-the-loop approach to iteratively design multiple-choice questions. Then, we evaluate the effectiveness of storytelling with LLMs through randomized controlled trials (RCTs) with legal novices on 10 samples from the dataset. We find that LLM-generated stories enhance comprehension of legal concepts and interest in law among non-native speakers compared to only definitions. Moreover, stories consistently help participants relate legal concepts to their lives. Finally, we find that learning with stories shows a higher retention rate for non-native speakers in the follow-up assessment. Our work has strong implications for using LLMs in promoting teaching and learning in the legal field and beyond.

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.

Xinjie Zhao, Moritz Blum, Rui Yang et al.

Large Language Models~(LLMs) have demonstrated capabilities across various applications but face challenges such as hallucination, limited reasoning abilities, and factual inconsistencies, especially when tackling complex, domain-specific tasks like question answering~(QA). While Knowledge Graphs~(KGs) have been shown to help mitigate these issues, research on the integration of LLMs with background KGs remains limited. In particular, user accessibility and the flexibility of the underlying KG have not been thoroughly explored. We introduce AGENTiGraph (Adaptive Generative ENgine for Task-based Interaction and Graphical Representation), a platform for knowledge management through natural language interaction. It integrates knowledge extraction, integration, and real-time visualization. AGENTiGraph employs a multi-agent architecture to dynamically interpret user intents, manage tasks, and integrate new knowledge, ensuring adaptability to evolving user requirements and data contexts. Our approach demonstrates superior performance in knowledge graph interactions, particularly for complex domain-specific tasks. Experimental results on a dataset of 3,500 test cases show AGENTiGraph significantly outperforms state-of-the-art zero-shot baselines, achieving 95.12\% accuracy in task classification and 90.45\% success rate in task execution. User studies corroborate its effectiveness in real-world scenarios. To showcase versatility, we extended AGENTiGraph to legislation and healthcare domains, constructing specialized KGs capable of answering complex queries in legal and medical contexts.

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.

Xinjie Zhao, Fan Gao, Xingyu Song et al.

Recent advances in large language models (LLMs) have significantly improved multi-hop question answering (QA) through direct Chain-of-Thought (CoT) reasoning. However, the irreversible nature of CoT leads to error accumulation, making it challenging to correct mistakes in multi-hop reasoning. This paper introduces ReAgent: a Reversible multi-Agent collaborative framework augmented with explicit backtracking mechanisms, enabling reversible multi-hop reasoning. By incorporating text-based retrieval, information aggregation and validation, our system can detect and correct errors mid-reasoning, leading to more robust and interpretable QA outcomes. The framework and experiments serve as a foundation for future work on error-tolerant QA systems. Empirical evaluations across three benchmarks indicate ReAgent's efficacy, yielding average about 6\% improvements against baseline models.

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.

Yunze Xiao, Tingyu He, Lionel Z. Wang et al.

This paper introduces JiraiBench, the first bilingual benchmark for evaluating large language models' effectiveness in detecting self-destructive content across Chinese and Japanese social media communities. Focusing on the transnational "Jirai" (landmine) online subculture that encompasses multiple forms of self-destructive behaviors including drug overdose, eating disorders, and self-harm, we present a comprehensive evaluation framework incorporating both linguistic and cultural dimensions. Our dataset comprises 10,419 Chinese posts and 5,000 Japanese posts with multidimensional annotation along three behavioral categories, achieving substantial inter-annotator agreement. Experimental evaluations across four state-of-the-art models reveal significant performance variations based on instructional language, with Japanese prompts unexpectedly outperforming Chinese prompts when processing Chinese content. This emergent cross-cultural transfer suggests that cultural proximity can sometimes outweigh linguistic similarity in detection tasks. Cross-lingual transfer experiments with fine-tuned models further demonstrate the potential for knowledge transfer between these language systems without explicit target language training. These findings highlight the need for culturally-informed approaches to multilingual content moderation and provide empirical evidence for the importance of cultural context in developing more effective detection systems for vulnerable online communities.

Fan Gao, Xinjie Zhao, Ding Xia et al.

Seeking dietary guidance often requires navigating complex professional knowledge while accommodating individual health conditions. Knowledge Graphs (KGs) offer structured and interpretable nutritional information, whereas Large Language Models (LLMs) naturally facilitate conversational recommendation delivery. In this paper, we present HealthGenie, an interactive system that combines the strengths of LLMs and KGs to provide personalized dietary recommendations along with hierarchical information visualization for a quick and intuitive overview. Upon receiving a user query, HealthGenie performs query refinement and retrieves relevant information from a pre-built KG. The system then visualizes and highlights pertinent information, organized by defined categories, while offering detailed, explainable recommendation rationales. Users can further tailor these recommendations by adjusting preferences interactively. Our evaluation, comprising a within-subject comparative experiment and an open-ended discussion, demonstrates that HealthGenie effectively supports users in obtaining personalized dietary guidance based on their health conditions while reducing interaction effort and cognitive load. These findings highlight the potential of LLM-KG integration in supporting decision-making through explainable and visualized information. We examine the system's usefulness and effectiveness with an N=12 within-subject study and provide design considerations for future systems that integrate conversational LLM and KG.

Aaron Tu, Weihao Xuan, Heli Qi et al. · gatech

Reinforcement learning with verifiable rewards (RLVR) is a practical and scalable approach to enhancing large language models in areas such as math, code, and other structured tasks. Two questions motivate this paper: how much of the reported gains survive under strictly parity-controlled evaluation, and whether RLVR is cost-free or exacts a measurable tax. We argue that progress is real, but gains are often overstated due to three forces - an RLVR tax, evaluation pitfalls, and data contamination. Using a partial-prompt contamination audit and matched-budget reproductions across base and RL models, we show that several headline gaps shrink or vanish under clean, parity-controlled evaluation. We then propose a tax-aware training and evaluation protocol that co-optimizes accuracy, grounding, and calibrated abstention and standardizes budgeting and provenance checks. Applied to recent RLVR setups, this protocol yields more reliable estimates of reasoning gains and, in several cases, revises prior conclusions. Our position is constructive: RLVR is valuable and industry-ready; we advocate keeping its practical benefits while prioritizing reliability, safety, and measurement.

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.

Jerry Huang, Peng Lu, Qiuhao Zeng et al.

Ensuring that deep learning models are well-calibrated in terms of their predictive uncertainty is essential in maintaining their trustworthiness and reliability, yet despite increasing advances in foundation model research, the relationship between such large language models (LLMs) and their calibration remains an open area of research. In this work, we look at a critical gap in the calibration of LLMs within multilingual settings, in an attempt to better understand how the data scarcity can potentially lead to different calibration effects and how commonly used techniques can apply in these settings. Our analysis on two multilingual benchmarks, over 29 and 42 languages respectively, reveals that even in low-resource languages, model confidence can increase significantly after instruction-tuning on high-resource language SFT datasets. However, improvements in accuracy are marginal or non-existent, resulting in mis-calibration, highlighting a critical shortcoming of standard SFT for multilingual languages. Furthermore, we observe that the use of label smoothing to be a reasonable method alleviate this concern, again without any need for low-resource SFT data, maintaining better calibration across all languages. Overall, this highlights the importance of multilingual considerations for both training and tuning LLMs in order to improve their reliability and fairness in downstream use.

Weitao Jia, Jinghui Lu, Haiyang Yu et al.

Recent advances demonstrate that reinforcement learning with verifiable rewards (RLVR) significantly enhances the reasoning capabilities of large language models (LLMs). However, standard RLVR faces challenges with reward sparsity, where zero rewards from consistently incorrect candidate answers provide no learning signal, particularly in challenging tasks. To address this, we propose Multi-Expert Mutual Learning GRPO (MEML-GRPO), an innovative framework that utilizes diverse expert prompts as system prompts to generate a broader range of responses, substantially increasing the likelihood of identifying correct solutions. Additionally, we introduce an inter-expert mutual learning mechanism that facilitates knowledge sharing and transfer among experts, further boosting the model's performance through RLVR. Extensive experiments across multiple reasoning benchmarks show that MEML-GRPO delivers significant improvements, achieving an average performance gain of 4.89% with Qwen and 11.33% with Llama, effectively overcoming the core limitations of traditional RLVR methods.

Rui Yang, Huitao Li, Matthew Yu Heng Wong et al.

Natural language processing (NLP) has been traditionally applied to medicine, and generative large language models (LLMs) have become prominent recently. However, the differences between them across different medical tasks remain underexplored. We analyzed 19,123 studies, finding that generative LLMs demonstrate advantages in open-ended tasks, while traditional NLP dominates in information extraction and analysis tasks. As these technologies advance, ethical use of them is essential to ensure their potential in medical applications.

Irene Li, Aosong Feng, Dragomir Radev et al.

Encoding long sequences in Natural Language Processing (NLP) is a challenging problem. Though recent pretraining language models achieve satisfying performances in many NLP tasks, they are still restricted by a pre-defined maximum length, making them challenging to be extended to longer sequences. So some recent works utilize hierarchies to model long sequences. However, most of them apply sequential models for upper hierarchies, suffering from long dependency issues. In this paper, we alleviate these issues through a graph-based method. We first chunk the sequence with a fixed length to model the sentence-level information. We then leverage graphs to model intra- and cross-sentence correlations with a new attention mechanism. Additionally, due to limited standard benchmarks for long document classification (LDC), we propose a new challenging benchmark, totaling six datasets with up to 53k samples and 4034 average tokens' length. Evaluation shows our model surpasses competitive baselines by 2.6% in F1 score, and 4.8% on the longest sequence dataset. Our method is shown to outperform hierarchical sequential models with better performance and scalability, especially for longer sequences.

Irene Li, Thomas George, Alexander Fabbri et al.

Effective human learning depends on a wide selection of educational materials that align with the learner's current understanding of the topic. While the Internet has revolutionized human learning or education, a substantial resource accessibility barrier still exists. Namely, the excess of online information can make it challenging to navigate and discover high-quality learning materials. In this paper, we propose the educational resource discovery (ERD) pipeline that automates web resource discovery for novel domains. The pipeline consists of three main steps: data collection, feature extraction, and resource classification. We start with a known source domain and conduct resource discovery on two unseen target domains via transfer learning. We first collect frequent queries from a set of seed documents and search on the web to obtain candidate resources, such as lecture slides and introductory blog posts. Then we introduce a novel pretrained information retrieval deep neural network model, query-document masked language modeling (QD-MLM), to extract deep features of these candidate resources. We apply a tree-based classifier to decide whether the candidate is a positive learning resource. The pipeline achieves F1 scores of 0.94 and 0.82 when evaluated on two similar but novel target domains. Finally, we demonstrate how this pipeline can benefit an application: leading paragraph generation for surveys. This is the first study that considers various web resources for survey generation, to the best of our knowledge. We also release a corpus of 39,728 manually labeled web resources and 659 queries from NLP, Computer Vision (CV), and Statistics (STATS).

Swapnil Hingmire, Irene Li, Rena Kawamura et al.

A classification scheme of a scientific subject gives an overview of its body of knowledge. It can also be used to facilitate access to research articles and other materials related to the subject. For example, the ACM Computing Classification System (CCS) is used in the ACM Digital Library search interface and also for indexing computer science papers. We observed that a comprehensive classification system like CCS or Mathematics Subject Classification (MSC) does not exist for Computational Linguistics (CL) and Natural Language Processing (NLP). We propose a classification scheme -- CLICKER for CL/NLP based on the analysis of online lectures from 77 university courses on this subject. The currently proposed taxonomy includes 334 topics and focuses on educational aspects of CL/NLP; it is based primarily, but not exclusively, on lecture notes from NLP courses. We discuss how such a taxonomy can help in various real-world applications, including tutoring platforms, resource retrieval, resource recommendation, prerequisite chain learning, and survey generation.

Irene Li, Alexander Fabbri, Rina Kawamura et al.

Fast-developing fields such as Artificial Intelligence (AI) often outpace the efforts of encyclopedic sources such as Wikipedia, which either do not completely cover recently-introduced topics or lack such content entirely. As a result, methods for automatically producing content are valuable tools to address this information overload. We show that recent advances in pretrained language modeling can be combined for a two-stage extractive and abstractive approach for Wikipedia lead paragraph generation. We extend this approach to generate longer Wikipedia-style summaries with sections and examine how such methods struggle in this application through detailed studies with 100 reference human-collected surveys. This is the first study on utilizing web resources for long Wikipedia-style summaries to the best of our knowledge.

Irene Li, Vanessa Yan, Dragomir Radev

Prerequisite chain learning helps people acquire new knowledge efficiently. While people may quickly determine learning paths over concepts in a domain, finding such paths in other domains can be challenging. We introduce Domain-Adversarial Variational Graph Autoencoders (DAVGAE) to solve this cross-domain prerequisite chain learning task efficiently. Our novel model consists of a variational graph autoencoder (VGAE) and a domain discriminator. The VGAE is trained to predict concept relations through link prediction, while the domain discriminator takes both source and target domain data as input and is trained to predict domain labels. Most importantly, this method only needs simple homogeneous graphs as input, compared with the current state-of-the-art model. We evaluate our model on the LectureBankCD dataset, and results show that our model outperforms recent graph-based benchmarks while using only 1/10 of graph scale and 1/3 computation time.

Irene Li, Jessica Pan, Jeremy Goldwasser et al.

Electronic health records (EHRs), digital collections of patient healthcare events and observations, are ubiquitous in medicine and critical to healthcare delivery, operations, and research. Despite this central role, EHRs are notoriously difficult to process automatically. Well over half of the information stored within EHRs is in the form of unstructured text (e.g. provider notes, operation reports) and remains largely untapped for secondary use. Recently, however, newer neural network and deep learning approaches to Natural Language Processing (NLP) have made considerable advances, outperforming traditional statistical and rule-based systems on a variety of tasks. In this survey paper, we summarize current neural NLP methods for EHR applications. We focus on a broad scope of tasks, namely, classification and prediction, word embeddings, extraction, generation, and other topics such as question answering, phenotyping, knowledge graphs, medical dialogue, multilinguality, interpretability, etc.

Irene Li, Vanessa Yan, Tianxiao Li et al.

Learning prerequisite chains is an essential task for efficiently acquiring knowledge in both known and unknown domains. For example, one may be an expert in the natural language processing (NLP) domain but want to determine the best order to learn new concepts in an unfamiliar Computer Vision domain (CV). Both domains share some common concepts, such as machine learning basics and deep learning models. In this paper, we propose unsupervised cross-domain concept prerequisite chain learning using an optimized variational graph autoencoder. Our model learns to transfer concept prerequisite relations from an information-rich domain (source domain) to an information-poor domain (target domain), substantially surpassing other baseline models. Also, we expand an existing dataset by introducing two new domains: CV and Bioinformatics (BIO). The annotated data and resources, as well as the code, will be made publicly available.

Irene Li, Aosong Feng, Hao Wu et al.

Multi-label text classification (MLTC) is an attractive and challenging task in natural language processing (NLP). Compared with single-label text classification, MLTC has a wider range of applications in practice. In this paper, we propose a label-interpretable graph convolutional network model to solve the MLTC problem by modeling tokens and labels as nodes in a heterogeneous graph. In this way, we are able to take into account multiple relationships including token-level relationships. Besides, the model allows better interpretability for predicted labels as the token-label edges are exposed. We evaluate our method on four real-world datasets and it achieves competitive scores against selected baseline methods. Specifically, this model achieves a gain of 0.14 on the F1 score in the small label set MLTC, and 0.07 in the large label set scenario.

Irene Li

Classification is an essential and fundamental task in machine learning, playing a cardinal role in the field of natural language processing (NLP) and computer vision (CV). In a supervised learning setting, labels are always needed for the classification task. Especially for deep neural models, a large amount of high-quality labeled data are required for training. However, when a new domain comes out, it is usually hard or expensive to acquire the labels. Transfer learning could be an option to transfer the knowledge from a source domain to a target domain. A challenge is that these two domains can be different, either on the feature distribution, or the class distribution for the nature of the samples. In this work, we evaluate some existing transfer learning approaches on detecting the bias of imbalanced classes including traditional and deep models. Besides, we propose an approach to bridge the gap of the domain class imbalance issue.

Toyotaro Suzumura, Dario Garcia-Gasulla, Sergio Alvarez Napagao et al.

This paper aims at providing the summary of the Global Data Science Project (GDSC) for COVID-19. as on May 31 2020. COVID-19 has largely impacted on our societies through both direct and indirect effects transmitted by the policy measures to counter the spread of viruses. We quantitatively analysed the multifaceted impacts of the COVID-19 pandemic on our societies including people's mobility, health, and social behaviour changes. People's mobility has changed significantly due to the implementation of travel restriction and quarantine measurements. Indeed, the physical distance has widened at international (cross-border), national and regional level. At international level, due to the travel restrictions, the number of international flights has plunged overall at around 88 percent during March. In particular, the number of flights connecting Europe dropped drastically in mid of March after the United States announced travel restrictions to Europe and the EU and participating countries agreed to close borders, at 84 percent decline compared to March 10th. Similarly, we examined the impacts of quarantine measures in the major city: Tokyo (Japan), New York City (the United States), and Barcelona (Spain). Within all three cities, we found the significant decline in traffic volume. We also identified the increased concern for mental health through the analysis of posts on social networking services such as Twitter and Instagram. Notably, in the beginning of April 2020, the number of post with #depression on Instagram doubled, which might reflect the rise in mental health awareness among Instagram users. Besides, we identified the changes in a wide range of people's social behaviors, as well as economic impacts through the analysis of Instagram data and primary survey data.

Irene Li, Yixin Li, Tianxiao Li et al.

The outbreak of coronavirus disease 2019 (COVID-19) recently has affected human life to a great extent. Besides direct physical and economic threats, the pandemic also indirectly impact people's mental health conditions, which can be overwhelming but difficult to measure. The problem may come from various reasons such as unemployment status, stay-at-home policy, fear for the virus, and so forth. In this work, we focus on applying natural language processing (NLP) techniques to analyze tweets in terms of mental health. We trained deep models that classify each tweet into the following emotions: anger, anticipation, disgust, fear, joy, sadness, surprise and trust. We build the EmoCT (Emotion-Covid19-Tweet) dataset for the training purpose by manually labeling 1,000 English tweets. Furthermore, we propose and compare two methods to find out the reasons that are causing sadness and fear.

Irene Li, Alexander Fabbri, Swapnil Hingmire et al.

The task of concept prerequisite chain learning is to automatically determine the existence of prerequisite relationships among concept pairs. In this paper, we frame learning prerequisite relationships among concepts as an unsupervised task with no access to labeled concept pairs during training. We propose a model called the Relational-Variational Graph AutoEncoder (R-VGAE) to predict concept relations within a graph consisting of concept and resource nodes. Results show that our unsupervised approach outperforms graph-based semi-supervised methods and other baseline methods by up to 9.77% and 10.47% in terms of prerequisite relation prediction accuracy and F1 score. Our method is notably the first graph-based model that attempts to make use of deep learning representations for the task of unsupervised prerequisite learning. We also expand an existing corpus which totals 1,717 English Natural Language Processing (NLP)-related lecture slide files and manual concept pair annotations over 322 topics.

Irene Li, Michihiro Yasunaga, Muhammed Yavuz Nuzumlalı et al.

Automated analysis of clinical notes is attracting increasing attention. However, there has not been much work on medical term abbreviation disambiguation. Such abbreviations are abundant, and highly ambiguous, in clinical documents. One of the main obstacles is the lack of large scale, balance labeled data sets. To address the issue, we propose a few-shot learning approach to take advantage of limited labeled data. Specifically, a neural topic-attention model is applied to learn improved contextualized sentence representations for medical term abbreviation disambiguation. Another vital issue is that the existing scarce annotations are noisy and missing. We re-examine and correct an existing dataset for training and collect a test set to evaluate the models fairly especially for rare senses. We train our model on the training set which contains 30 abbreviation terms as categories (on average, 479 samples and 3.24 classes in each term) selected from a public abbreviation disambiguation dataset, and then test on a manually-created balanced dataset (each class in each term has 15 samples). We show that enhancing the sentence representation with topic information improves the performance on small-scale unbalanced training datasets by a large margin, compared to a number of baseline models.

Michihiro Yasunaga, Jungo Kasai, Rui Zhang et al.

Scientific article summarization is challenging: large, annotated corpora are not available, and the summary should ideally include the article's impacts on research community. This paper provides novel solutions to these two challenges. We 1) develop and release the first large-scale manually-annotated corpus for scientific papers (on computational linguistics) by enabling faster annotation, and 2) propose summarization methods that integrate the authors' original highlights (abstract) and the article's actual impacts on the community (citations), to create comprehensive, hybrid summaries. We conduct experiments to demonstrate the efficacy of our corpus in training data-driven models for scientific paper summarization and the advantage of our hybrid summaries over abstracts and traditional citation-based summaries. Our large annotated corpus and hybrid methods provide a new framework for scientific paper summarization research.

Tao Yu, Rui Zhang, Michihiro Yasunaga et al.

We present SParC, a dataset for cross-domainSemanticParsing inContext that consists of 4,298 coherent question sequences (12k+ individual questions annotated with SQL queries). It is obtained from controlled user interactions with 200 complex databases over 138 domains. We provide an in-depth analysis of SParC and show that it introduces new challenges compared to existing datasets. SParC demonstrates complex contextual dependencies, (2) has greater semantic diversity, and (3) requires generalization to unseen domains due to its cross-domain nature and the unseen databases at test time. We experiment with two state-of-the-art text-to-SQL models adapted to the context-dependent, cross-domain setup. The best model obtains an exact match accuracy of 20.2% over all questions and less than10% over all interaction sequences, indicating that the cross-domain setting and the con-textual phenomena of the dataset present significant challenges for future research. The dataset, baselines, and leaderboard are released at https://yale-lily.github.io/sparc.

Alexander R. Fabbri, Irene Li, Tianwei She et al.

Automatic generation of summaries from multiple news articles is a valuable tool as the number of online publications grows rapidly. Single document summarization (SDS) systems have benefited from advances in neural encoder-decoder model thanks to the availability of large datasets. However, multi-document summarization (MDS) of news articles has been limited to datasets of a couple of hundred examples. In this paper, we introduce Multi-News, the first large-scale MDS news dataset. Additionally, we propose an end-to-end model which incorporates a traditional extractive summarization model with a standard SDS model and achieves competitive results on MDS datasets. We benchmark several methods on Multi-News and release our data and code in hope that this work will promote advances in summarization in the multi-document setting.