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Despite the wide adoption of Large Language Models (LLM)s, clinical decision support systems face a critical challenge: achieving high predictive accuracy while generating explanations aligned with the predictions. Current approaches suffer…

Artificial Intelligence · Computer Science 2026-05-07 H M Quamran Hasan , Housam Khalifa Bashier , Jiayi Dai , Mi-Young Kim , Randy Goebel

Pursuing artificial intelligence for biomedical science, a.k.a. AI Scientist, draws increasing attention, where one common approach is to build a copilot agent driven by Large Language Models (LLMs). However, to evaluate such systems,…

Computation and Language · Computer Science 2024-07-02 Xinna Lin , Siqi Ma , Junjie Shan , Xiaojing Zhang , Shell Xu Hu , Tiannan Guo , Stan Z. Li , Kaicheng Yu

Multimodal Large Language Models are increasingly applied to biomedical imaging, yet scientific reasoning for microscopy remains limited by the scarcity of large-scale, high-quality training data. We introduce MicroVQA++, a three-stage,…

Computer Vision and Pattern Recognition · Computer Science 2025-11-17 Manyu Li , Ruian He , Chenxi Ma , Weimin Tan , Bo Yan

Knowledge gaps often arise during communication due to diverse backgrounds, knowledge bases, and vocabularies. With recent LLM developments, providing real-time knowledge support is increasingly viable, but is challenging due to shared and…

Human-Computer Interaction · Computer Science 2025-05-02 Yuhan Liu , Aadit Shah , Jordan Ackerman , Manaswi Saha

Due to the remarkable reasoning ability, Large language models (LLMs) have demonstrated impressive performance in knowledge graph question answering (KGQA) tasks, which find answers to natural language questions over knowledge graphs (KGs).…

Computation and Language · Computer Science 2025-02-25 Xiao Long , Liansheng Zhuang , Aodi Li , Minghong Yao , Shafei Wang

Most automated electronic medical record (EMR) pipelines remain output-oriented: they transcribe, extract, and summarize after the consultation, but they do not explicitly model what is already known, what is still missing, which…

Artificial Intelligence · Computer Science 2026-03-19 Zhenhai Pan , Yan Liu , Jia You

In recent years, accurately and quickly deploying medical large language models (LLMs) has become a trend. Among these, retrieval-augmented generation (RAG) has garnered attention due to rapid deployment and privacy protection. However, the…

Computation and Language · Computer Science 2025-08-06 Penglei Sun , Yixiang Chen , Xiang Li , Xiaowen Chu

Despite the advances in large language models (LLMs), how they use their knowledge for reasoning is not yet well understood. In this study, we propose a method that deconstructs complex real-world questions into a graph, representing each…

Computation and Language · Computer Science 2024-10-07 Miyoung Ko , Sue Hyun Park , Joonsuk Park , Minjoon Seo

Autoregressive large language models (LLMs) pre-trained by next token prediction are inherently proficient in generative tasks. However, their performance on knowledge-driven tasks such as factual knowledge querying remains unsatisfactory.…

Computation and Language · Computer Science 2026-01-14 Peng Yu , Cheng Deng , Beiya Dai , Xinbing Wang , Ying Wen

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…

Large language models (LLMs) often produce confident but incorrect answers in settings where abstention would be safer. Standard evaluation protocols, however, require a response and do not account for how confidence should guide decisions…

Computation and Language · Computer Science 2026-04-06 Sean Wu , Fredrik K. Gustafsson , Edward Phillips , Boyan Gao , Anshul Thakur , David A. Clifton

Large Language Models (LLMs) offer promising opportunities to support mental healthcare workflows, yet they often lack the structured clinical reasoning needed for reliable diagnosis and may struggle to provide the emotionally attuned…

Artificial Intelligence · Computer Science 2026-04-20 Yuqi Wu , Guangya Wan , Jingjing Li , Shengming Zhao , Lingfeng Ma , Tianyi Ye , Ion Pop , Yanbo Zhang , Jie Chen

Large language models (LLMs) excel in generating fluent utterances but can lack reliable grounding in verified information. At the same time, knowledge-graph-based fact-checkers deliver precise and interpretable evidence, yet suffer from…

Computation and Language · Computer Science 2025-11-06 Shaghayegh Kolli , Richard Rosenbaum , Timo Cavelius , Lasse Strothe , Andrii Lata , Jana Diesner

Answering complex real-world questions in the medical domain often requires accurate retrieval from medical Textual Knowledge Graphs (medical TKGs), as the relational path information from TKGs could enhance the inference ability of Large…

Computation and Language · Computer Science 2026-04-14 Jiatan Huang , Mingchen Li , Zonghai Yao , Dawei Li , Yuxin Zhang , Zhichao Yang , Yongkang Xiao , Feiyun Ouyang , Xiaohan Li , Shuo Han , Hong Yu

Knowledge graphs and large language models (LLMs) are key tools for biomedical knowledge integration and reasoning, facilitating structured organization of scientific articles and discovery of complex semantic relationships. However,…

Computation and Language · Computer Science 2025-04-01 Yichun Feng , Jiawei Wang , Ruikun He , Lu Zhou , Yixue Li

Knowledge graphs, collectively as a knowledge network, have become critical tools for knowledge discovery in computable and explainable knowledge systems. Due to the semantic and structural complexities of biomedical data, these knowledge…

Other Quantitative Biology · Quantitative Biology 2025-09-29 Chunlei Wu , Hongfang Liu , Jason Flannick , Mark A. Musen , Andrew I. Su , Lawrence Hunter , Thomas M. Powers , Cathy H. Wu

The paper introduces a framework for the evaluation of the encoding of factual scientific knowledge, designed to streamline the manual evaluation process typically conducted by domain experts. Inferring over and extracting information from…

Computation and Language · Computer Science 2024-10-21 Magdalena Wysocka , Oskar Wysocki , Maxime Delmas , Vincent Mutel , Andre Freitas

Reliable Large Language Models (LLMs) should abstain when confidence is insufficient. However, prior studies often treat refusal as a generic "I don't know'', failing to distinguish input-level ambiguity (data uncertainty) from capability…

Computation and Language · Computer Science 2026-04-21 Jingyi Ren , Ante Wang , Yunghwei Lai , Xiaolong Wang , Linlu Gong , Weitao Li , Weizhi Ma , Yang Liu

While Large Language Models (LLMs) achieve expert-level performance on standard medical benchmarks through single-hop factual recall, they severely struggle with the complex, multi-hop diagnostic reasoning required in real-world clinical…

Computation and Language · Computer Science 2026-03-16 Xing Zi , Xinying Zhou , Jinghao Xiao , Catarina Moreira , Mukesh Prasad

LLM cascades deploy small LLMs to answer most queries, limiting the use of large and expensive LLMs to difficult queries. This approach can significantly reduce costs without impacting performance. However, risk-sensitive domains such as…

Artificial Intelligence · Computer Science 2025-04-01 Michael J. Zellinger , Rex Liu , Matt Thomson
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