Rui Zhang - RankMe

157 papers A* 3A 1B 1Misc 15Journal 99Unranked 37

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	AgentDS Technical Report: Benchmarking the Future of Human-AI Collaboration in Domain-Specific Data Science. CoRR An Luo, Jin Du, Xun Xian, Robert Specht, Fangqiao Tian, Ganghua Wang, Xuan Bi, Charles Fleming, Ashish Kundu, Jayanth Srinivasa, Mingyi Hong, Rui Zhang, Tianxi Li, Galin Jones, Jie Ding
2026	J	`jnl`	EpiScreen: Early Epilepsy Detection from Electronic Health Records with Large Language Models. CoRR Shuang Zhou, Kai Yu, Zaifu Zhan, Huixue Zhou, Min Zeng, Feng Xie, Zhiyi Sha, Rui Zhang
2026	J	`jnl`	HeartAgent: An Autonomous Agent System for Explainable Differential Diagnosis in Cardiology. CoRR Shuang Zhou, Kai Yu, Song Wang, Wenya Xie, Zaifu Zhan, Meng-Han Tsai, Yuen-Hei Chung, Shutong Hou, Huixue Zhou, Min Zeng, Bhavadharini Ramu, Lin Yee Chen, Feng Xie, Rui Zhang
2026	J	`jnl`	MedCL-Bench: Benchmarking stability-efficiency trade-offs and scaling in biomedical continual learning. CoRR Min Zeng, Shuang Zhou, Zaifu Zhan, Rui Zhang
2026	J	`jnl`	PEER: Towards reliable and efficient inference via Patience-Based Early Exiting with Rejection. J. Biomed. Informatics Zaifu Zhan, Shuang Zhou, Rui Zhang
2026	J	`jnl`	To Reason or Not to: Selective Chain-of-Thought in Medical Question Answering. CoRR Zaifu Zhan, Min Zeng, Shuang Zhou, Yiran Song, Xiaoyi Chen, Yu Hou, Yifan Wu, Yang Ruan, Rui Zhang
2025	J	`jnl`	An Outlook on the Opportunities and Challenges of Multi-Agent AI Systems. CoRR Fangqiao Tian, An Luo, Jin Du, Xun Xian, Robert Specht, Ganghua Wang, Xuan Bi, Jiawei Zhou, Jayanth Srinivasa, Ashish Kundu, Charles Fleming, Rui Zhang, Zirui Liu, Mingyi Hong, Jie Ding
2025	J	`jnl`	An evaluation of DeepSeek Models in Biomedical Natural Language Processing. CoRR Zaifu Zhan, Shuang Zhou, Huixue Zhou, Jiawen Deng, Yu Hou, Jeremy Yeung, Rui Zhang
2025	J	`jnl`	Automating Expert-Level Medical Reasoning Evaluation of Large Language Models. CoRR Shuang Zhou, Wenya Xie, Jiaxi Li, Zaifu Zhan, Meijia Song, Han Yang, Cheyenna Espinoza, Lindsay Welton, Xinnie Mai, Yanwei Jin, Zidu Xu, Yuen-Hei Chung, Yiyun Xing, Meng-Han Tsai, Emma Schaffer, Yucheng Shi, Ninghao Liu, Zirui Liu, Rui Zhang
2025	J	`jnl`	Automating expert-level medical reasoning evaluation of large language models. npj Digit. Medicine Shuang Zhou, Wenya Xie, Jiaxi Li, Zaifu Zhan, Meijia Song, Han Yang, Cheyenna Espinoza, Lindsay Welton, Xinnie Mai, Yanwei Jin, Zidu Xu, Yuen-Hei Chung, Yiyun Xing, Meng-Han Tsai, Emma Schaffer, Yucheng Shi, Ninghao Liu, Zirui Liu, Rui Zhang
2025	J	`jnl`	Benchmarking GPT-5 for biomedical natural language processing. CoRR Yu Hou, Zaifu Zhan, Rui Zhang
2025	J	`jnl`	BiomedRAG: A retrieval augmented large language model for biomedicine. J. Biomed. Informatics Mingchen Li, Halil Kilicoglu, Hua Xu, Rui Zhang
2025	J	`jnl`	Comparison of six natural language processing approaches to assessing firearm access in Veterans Health Administration electronic health records. J. Am. Medical Informatics Assoc. Joshua Trujeque, R. Adams Dudley, Nathan Mesfin, Nicholas E. Ingraham, Isai Ortiz, Ann Bangerter, Anjan Chakraborty, Dalton Schutte, Jeremy Yeung, Ying Liu, Alicia Woodward-Abel, Emma Bromley, Rui Zhang, Lisa A. Brenner, Joseph A. Simonetti
2025	J	`jnl`	Continually Evolved Multimodal Foundation Models for Cancer Prognosis. CoRR Jie Peng, Shuang Zhou, Longwei Yang, Yiran Song, Mohan Zhang, Kaixiong Zhou, Feng Xie, Mingquan Lin, Rui Zhang, Tianlong Chen
2025	J	`jnl`	Data-Efficient Biomedical In-Context Learning: A Diversity-Enhanced Submodular Perspective. CoRR Jun Wang, Zaifu Zhan, Qixin Zhang, Mingquan Lin, Meijia Song, Rui Zhang
2025	—	`conf`	DrKGC: Dynamic Subgraph Retrieval-Augmented LLMs for Knowledge Graph Completion across General and Biomedical Domains. EMNLP (Findings) Yongkang Xiao, Sinian Zhang, Yi Dai, Huixue Zhou, Jue Hou, Jie Ding, Rui Zhang
2025	J	`jnl`	EPEE: Towards Efficient and Effective Foundation Models in Biomedicine. CoRR Zaifu Zhan, Shuang Zhou, Huixue Zhou, Zirui Liu, Rui Zhang
2025	—	`conf`	External Large Foundation Model: How to Efficiently Serve Trillions of Parameters for Online Ads Recommendation. WWW (Companion Volume) Mingfu Liang, Xi Liu, Rong Jin, Boyang Liu, Qiuling Suo, Qinghai Zhou, Song Zhou, Laming Chen, Hua Zheng, Zhiyuan Li, Shali Jiang, Jiyan Yang, Xiaozhen Xia, Fan Yang, Yasmine Badr, Ellie Wen, Shuyu Xu, Hansey Chen, Zhengyu Zhang, Jade Nie, Chunzhi Yang, Zhichen Zeng, Weilin Zhang, Xingliang Huang, Qianru Li, Shiquan Wang, Evelyn Lyu, Wenjing Lu, Rui Zhang, Wenjun Wang, Jason Rudy, Mengyue Hang, Kai Wang, Bo Long, Wenlin Chen, Santanu Kolay, Huayu Li
2025	J	`jnl`	External Large Foundation Model: How to Efficiently Serve Trillions of Parameters for Online Ads Recommendation. CoRR Mingfu Liang, Xi Liu, Rong Jin, Boyang Liu, Qiuling Suo, Qinghai Zhou, Song Zhou, Laming Chen, Hua Zheng, Zhiyuan Li, Shali Jiang, Jiyan Yang, Xiaozhen Xia, Fan Yang, Yasmine Badr, Ellie Wen, Shuyu Xu, Hansey Chen, Zhengyu Zhang, Jade Nie, Chunzhi Yang, Zhichen Zeng, Weilin Zhang, Xingliang Huang, Qianru Li, Shiquan Wang, Evelyn Lyu, Wenjing Lu, Rui Zhang, Wenjun Wang, Jason Rudy, Mengyue Hang, Kai Wang, Yinbin Ma, Shuaiwen Wang, Sihan Zeng, Tongyi Tang, Xiaohan Wei, Longhao Jin, Jamey Zhang, Marcus Chen, Jiayi Zhang, Angie Huang, Chi Zhang, Zhengli Zhao, Jared Yang, Qiang Jin, Xian Chen, Amit Anand Amlesahwaram, Lexi Song, Liang Luo, Yuchen Hao, Nan Xiao, Yavuz Yetim, Luoshang Pan, Gaoxiang Liu, Yuxi Hu, Yuzhen Huang, Jackie Xu, Rich Zhu, Xin Zhang, Yiqun Liu, Hang Yin, Yuxin Chen, Buyun Zhang, Xiaoyi Liu, Xingyuan Wang, Wenguang Mao, Zhijing Li, Qin Huang, Chonglin Sun, Shupin Mao, Benjamin Au, Jingzheng Qin, Peggy Yao, Jae-Woo Choi, Bin Gao, Ernest Wang, Lei Zhang, Wen-Yen Chen, Ted Lee, Jay Zha, Yi Meng, Alex Gong, Edison Gao, Alireza Vahdatpour, Yiping Han, Yantao Yao, Toshinari Kureha, Shuo Chang, Musharaf Sultan, John Bocharov, Sagar Chordia, Xiaorui Gan, Peng Sun, Rocky Liu, Bo Long, Wenlin Chen, Santanu Kolay, Huayu Li
2025	J	`jnl`	MMRAG: Multi-Mode Retrieval-Augmented Generation with Large Language Models for Biomedical In-Context Learning. CoRR Zaifu Zhan, Jun Wang, Shuang Zhou, Jiawen Deng, Rui Zhang
2025	J	`jnl`	MMRAG: multi-mode retrieval-augmented generation with large language models for biomedical in-context learning. J. Am. Medical Informatics Assoc. Zaifu Zhan, Jun Wang, Shuang Zhou, Jiawen Deng, Rui Zhang
2025	J	`jnl`	MeCaMIL: Causality-Aware Multiple Instance Learning for Fair and Interpretable Whole Slide Image Diagnosis. CoRR Yiran Song, Yikai Zhang, Shuang Zhou, Guojun Xiong, Xiaofeng Yang, Nian Wang, Fenglong Ma, Rui Zhang, Mingquan Lin
2025	J	`jnl`	Multimodal Data Fusion for Whole-Slide Histopathology Image Classification. J. Heal. Informatics Res. Yiran Song, Mousumi Roy, Minghao Zhong, Liam Chen, Mingquan Lin, Rui Zhang
2025	A*	`conf`	On the Vulnerability of Applying Retrieval-Augmented Generation within Knowledge-Intensive Application Domains. ICML Xun Xian, Ganghua Wang, Xuan Bi, Rui Zhang, Jayanth Srinivasa, Ashish Kundu, Charles Fleming, Mingyi Hong, Jie Ding
2025	J	`jnl`	Quantized Large Language Models in Biomedical Natural Language Processing: Evaluation and Recommendation. CoRR Zaifu Zhan, Shuang Zhou, Min Zeng, Kai Yu, Meijia Song, Xiaoyi Chen, Jun Wang, Yu Hou, Rui Zhang
2025	J	`jnl`	RAMIE: retrieval-augmented multi-task information extraction with large language models on dietary supplements. J. Am. Medical Informatics Assoc. Zaifu Zhan, Shuang Zhou, Mingchen Li, Rui Zhang
2025	J	`jnl`	Retrieval-augmented in-context learning for multimodal large language models in disease classification. CoRR Zaifu Zhan, Shuang Zhou, Xiaoshan Zhou, Yongkang Xiao, Jun Wang, Jiawen Deng, He Zhu, Yu Hou, Rui Zhang
2025	A	`conf`	Safety Aware Task Planning via Large Language Models in Robotics. IROS Azal Ahmad Khan, Michael Andrev, Muhammad Ali Murtaza, Sergio Aguilera, Rui Zhang, Jie Ding, Seth Hutchinson, Ali Anwar
2025	J	`jnl`	Safety Aware Task Planning via Large Language Models in Robotics. CoRR Azal Ahmad Khan, Michael Andrev, Muhammad Ali Murtaza, Sergio Aguilera, Rui Zhang, Jie Ding, Seth Hutchinson, Ali Anwar
2025	—	`conf`	The Efficiency vs. Accuracy Trade-off: Optimizing RAG-Enhanced LLM Recommender Systems Using Multi-Head Early Exit. ACL (1) Huixue Zhou, Hengrui Gu, Zaifu Zhan, Xi Liu, Kaixiong Zhou, Yongkang Xiao, Mingfu Liang, Srinivas Prasad Govindan, Piyush Chawla, Jiyan Yang, Xiangfei Meng, Huayu Li, Buyun Zhang, Liang Luo, Wen-Yen Chen, Yiping Han, Bo Long, Rui Zhang, Tianlong Chen
2025	J	`jnl`	The Efficiency vs. Accuracy Trade-off: Optimizing RAG-Enhanced LLM Recommender Systems Using Multi-Head Early Exit. CoRR Huixue Zhou, Hengrui Gu, Xi Liu, Kaixiong Zhou, Mingfu Liang, Yongkang Xiao, Srinivas Govindan, Piyush Chawla, Jiyan Yang, Xiangfei Meng, Huayu Li, Buyun Zhang, Liang Luo, Wen-Yen Chen, Yiping Han, Bo Long, Rui Zhang, Tianlong Chen
2025	—	`conf`	Two-Stage Decoupling Framework for Variable-Length Glaucoma Prognosis. LMID@MICCAI Yiran Song, Yikai Zhang, Silvia Orengo-Nania, Nian Wang, Fenglong Ma, Rui Zhang, Yifan Peng, Mingquan Lin
2025	J	`jnl`	Two-Stage Decoupling Framework for Variable-Length Glaucoma Prognosis. CoRR Yiran Song, Yikai Zhang, Silvia Orengo-Nania, Nian Wang, Fenglong Ma, Rui Zhang, Yifan Peng, Mingquan Lin
2025	J	`jnl`	Uncertainty-Aware Large Language Models for Explainable Disease Diagnosis. CoRR Shuang Zhou, Jiashuo Wang, Zidu Xu, Song Wang, David Brauer, Lindsay Welton, Jacob Cogan, Yuen-Hei Chung, Lei Tian, Zaifu Zhan, Yu Hou, Mingquan Lin, Genevieve B. Melton, Rui Zhang
2025	J	`jnl`	Uncertainty-aware large language models for explainable disease diagnosis. npj Digit. Medicine Shuang Zhou, Jiashuo Wang, Zidu Xu, Song Wang, David Brauer, Lindsay Welton, Jacob Cogan, Yuen-Hei Chung, Lei Tian, Zaifu Zhan, Yu Hou, Mingquan Lin, Genevieve B. Melton, Rui Zhang
2024	J	`jnl`	A Condensed Transition Graph Framework for Zero-shot Link Prediction with Large Language Models. CoRR Mingchen Li, Chen Ling, Rui Zhang, Liang Zhao
2024	J	`jnl`	A review of reinforcement learning for natural language processing and applications in healthcare. J. Am. Medical Informatics Assoc. Ying Liu, Haozhu Wang, Huixue Zhou, Mingchen Li, Yu Hou, Sicheng Zhou, Fang Wang, Rama Hoetzlein, Rui Zhang
2024	J	`jnl`	A taxonomy for advancing systematic error analysis in multi-site electronic health record-based clinical concept extraction. J. Am. Medical Informatics Assoc. Sunyang Fu, Liwei Wang, Huan He, Andrew Wen, Nansu Zong, Anamika Kumari, Feifan Liu, Sicheng Zhou, Rui Zhang, Chenyu Li, Yanshan Wang, Jennifer St Sauver, Hongfang Liu, Sunghwan Sohn
2024	J	`jnl`	An in-depth evaluation of federated learning on biomedical natural language processing for information extraction. npj Digit. Medicine Le Peng, Gaoxiang Luo, Sicheng Zhou, Jiandong Chen, Ziyue Xu, Ju Sun, Rui Zhang
2024	J	`jnl`	Benchmarking Retrieval-Augmented Large Language Models in Biomedical NLP: Application, Robustness, and Self-Awareness. CoRR Mingchen Li, Zaifu Zhan, Han Yang, Yongkang Xiao, Jiatan Huang, Rui Zhang
2024	J	`jnl`	BiomedRAG: A Retrieval Augmented Large Language Model for Biomedicine. CoRR Mingchen Li, Halil Kilicoglu, Hua Xu, Rui Zhang
2024	J	`jnl`	CancerLLM: A Large Language Model in Cancer Domain. CoRR Mingchen Li, Anne H. Blaes, Steven Johnson, Hongfang Liu, Hua Xu, Rui Zhang
2024	J	`jnl`	Complementary and Integrative Health Information in the literature: its lexicon and named entity recognition. J. Am. Medical Informatics Assoc. Huixue Zhou, Robin Austin, Sheng-Chieh Lu, Greg M. Silverman, Yuqi Zhou, Halil Kilicoglu, Hua Xu, Rui Zhang
2024	A*	`conf`	Denoising-Aware Contrastive Learning for Noisy Time Series. IJCAI Shuang Zhou, Daochen Zha, Xiao Shen, Xiao Huang, Rui Zhang, Korris Fu-Lai Chung
2024	J	`jnl`	Denoising-Aware Contrastive Learning for Noisy Time Series. CoRR Shuang Zhou, Daochen Zha, Xiao Shen, Xiao Huang, Rui Zhang, Fu-Lai Chung
2024	J	`jnl`	Enhancing the coverage of SemRep using a relation classification approach. J. Biomed. Informatics Shufan Ming, Rui Zhang, Halil Kilicoglu
2024	J	`jnl`	Environment Scan of Generative AI Infrastructure for Clinical and Translational Science. CoRR Betina Idnay, Zihan Xu, William G. Adams, Mohammad Adibuzzaman, Nicholas R. Anderson, Neil Bahroos, Douglas S. Bell, Cody Bumgardner, Thomas R. Campion Jr., Victor M. Castro, James J. Cimino, I. Glenn Cohen, David A. Dorr, Peter L. Elkin, Jungwei W. Fan, Todd Ferris, David J. Foran, David A. Hanauer, Mike Hogarth, Kun Huang, Jayashree Kalpathy-Cramer, Manoj Kandpal, Niranjan S. Karnik, Avnish Katoch, Albert M. Lai, Christophe G. Lambert, Lang Li, Christopher J. Lindsell, Jinze Liu, Zhiyong Lu, Yuan Luo, Peter McGarvey, Eneida A. Mendonça, Parsa Mirhaji, Shawn N. Murphy, John D. Osborne, Ioannis Ch. Paschalidis, Paul A. Harris, Fred W. Prior, Nicholas J. Shaheen, Nawar Shara, Ida Sim, Umberto Tachinardi, Lemuel R. Waitman, Rosalind J. Wright, Adrian H. Zai, Kai Zheng, Sandra Soo-Jin Lee, Bradley A. Malin, Karthik Natarajan, W. Nicholson Price, Rui Zhang, Yiye Zhang, Hua Xu, Jiang Bian, Chunhua Weng, Yifan Peng
2024	J	`jnl`	FuseLinker: Leveraging LLM's pre-trained text embeddings and domain knowledge to enhance GNN-based link prediction on biomedical knowledge graphs. J. Biomed. Informatics Yongkang Xiao, Sinian Zhang, Huixue Zhou, Mingchen Li, Han Yang, Rui Zhang
2024	J	`jnl`	Interpretable Differential Diagnosis with Dual-Inference Large Language Models. CoRR Shuang Zhou, Sirui Ding, Jiashuo Wang, Mingquan Lin, Genevieve B. Melton, Rui Zhang
2024	J	`jnl`	LEAP: LLM instruction-example adaptive prompting framework for biomedical relation extraction. J. Am. Medical Informatics Assoc. Huixue Zhou, Mingchen Li, Yongkang Xiao, Han Yang, Rui Zhang
2024	J	`jnl`	Large Language Models for Disease Diagnosis: A Scoping Review. CoRR Shuang Zhou, Zidu Xu, Mian Zhang, Chunpu Xu, Yawen Guo, Zaifu Zhan, Sirui Ding, Jiashuo Wang, Kaishuai Xu, Yi Fang, Liqiao Xia, Jeremy Yeung, Daochen Zha, Genevieve B. Melton, Mingquan Lin, Rui Zhang
2024	J	`jnl`	Multi-modality risk prediction of cardiovascular diseases for breast cancer cohort in the J. Am. Medical Informatics Assoc. Han Yang, Sicheng Zhou, Zexi Rao, Chen Zhao, Erjia Cui, Chetan Shenoy, Anne H. Blaes, Nishitha Paidimukkala, Jinhua Wang, Jue Hou, Rui Zhang
2024	J	`jnl`	RAMIE: Retrieval-Augmented Multi-task Information Extraction with Large Language Models on Dietary Supplements. CoRR Zaifu Zhan, Shuang Zhou, Mingchen Li, Rui Zhang
2024	J	`jnl`	RT: a Retrieving and Chain-of-Thought framework for few-shot medical named entity recognition. J. Am. Medical Informatics Assoc. Mingchen Li, Huixue Zhou, Han Yang, Rui Zhang
2024	J	`jnl`	Towards Better Multi-task Learning: A Framework for Optimizing Dataset Combinations in Large Language Models. CoRR Zaifu Zhan, Rui Zhang
2024	A*	`conf`	Zero-Shot Link Prediction in Knowledge Graphs with Large Language Models. ICDM Mingchen Li, Chen Ling, Rui Zhang, Liang Zhao
2023	J	`jnl`	A Cross-institutional Evaluation on Breast Cancer Phenotyping NLP Algorithms on Electronic Health Records. CoRR Sicheng Zhou, Nan Wang, Liwei Wang, Ju Sun, Anne H. Blaes, Hongfang Liu, Rui Zhang
2023	J	`jnl`	A Review of Reinforcement Learning for Natural Language Processing, and Applications in Healthcare. CoRR Ying Liu, Haozhu Wang, Huixue Zhou, Mingchen Li, Yu Hou, Sicheng Zhou, Fang Wang, Rama Hoetzlein, Rui Zhang
2023	—	`conf`	A Symptom-Based Natural Language Processing Surveillance Pipeline for Post-COVID-19 Patients. MedInfo Greg M. Silverman, Geetanjali Rajamani, Nicholas E. Ingraham, James K. Glover, Himanshu S. Sahoo, Michael Usher, Rui Zhang, Farha Ikramuddin, Tanya E. Melnik, Genevieve B. Melton, Christopher J. Tignanelli
2023	J	`jnl`	A Systematic Evaluation of Federated Learning on Biomedical Natural Language Processing. CoRR Le Peng, Sicheng Zhou, Jiandong Chen, Rui Zhang, Ziyue Xu, Ju Sun
2023	—	`conf`	Advanced Care Planning Content Encoding with Natural Language Processing. MedInfo Benjamin C. Knoll, Melissa Gunderson, Geetanjali Rajamani, Elizabeth C. Wick, Alexis Colley, Elizabeth Lindemann, Rubina F. Rizvi, Molly Diethelm, Gretchen M. Hultman, Logan Pierce, Rui Zhang, Genevieve B. Melton
2023	J	`jnl`	An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). J. Am. Medical Informatics Assoc. Sijia Liu, Andrew Wen, Liwei Wang, Huan He, Sunyang Fu, Robert T. Miller, Andrew E. Williams, Daniel R. Harris, Ramakanth Kavuluru, Mei Liu, Noor Abu-El-Rub, Dalton Schutte, Rui Zhang, Masoud Rouhizadeh, John D. Osborne, Yongqun He, Umit Topaloglu, Stephanie S. Hong, Joel H. Saltz, Thomas Schaffter, Emily R. Pfaff, Christopher G. Chute, Tim Duong, Melissa A. Haendel, Rafael Fuentes, Peter Szolovits, Hua Xu, Hongfang Liu
2023	—	`conf`	Assessing ChatGPT for Text Summarization, Simplification and Extraction Tasks. ICHI Raseen Tariq, Sheza Malik, Mousumi Roy, Meena Z. Islam, Umair Rasheed, Jiang Bian, Kai Zheng, Rui Zhang
2023	J	`jnl`	Editorial: Explainable artificial intelligence for critical healthcare applications. Frontiers Artif. Intell. Zhe He, Rui Zhang, Gayo Diallo, Zhengxing Huang, Benjamin S. Glicksberg
2023	J	`jnl`	Extracting Complementary and Integrative Health Approaches in Electronic Health Records. J. Heal. Informatics Res. Huixue Zhou, Greg M. Silverman, Zhongran Niu, Jenzi Silverman, Roni Evans, Robin Austin, Rui Zhang
2023	J	`jnl`	How far is Language Model from 100% Few-shot Named Entity Recognition in Medical Domain. CoRR Mingchen Li, Rui Zhang
2023	J	`jnl`	Large language models in biomedical natural language processing: benchmarks, baselines, and recommendations. CoRR Qingyu Chen, Jingcheng Du, Yan Hu, Vipina Kuttichi Keloth, Xueqing Peng, Kalpana Raja, Rui Zhang, Zhiyong Lu, Hua Xu
2023	J	`jnl`	PeTailor: Improving Large Language Model by Tailored Chunk Scorer in Biomedical Triple Extraction. CoRR Mingchen Li, Ming Chen, Huixue Zhou, Rui Zhang
2023	J	`jnl`	Representing and utilizing clinical textual data for real world studies: An OHDSI approach. J. Biomed. Informatics Vipina Kuttichi Keloth, Juan M. Banda, Michael J. Gurley, Paul M. Heider, Georgina Kennedy, Hongfang Liu, Feifan Liu, Timothy Miller, Karthik Natarajan, Olga V. Patterson, Yifan Peng, Kalpana Raja, Ruth M. Reeves, Masoud Rouhizadeh, Jianlin Shi, Xiaoyan Wang, Yanshan Wang, Wei-Qi Wei, Andrew E. Williams, Rui Zhang, Rimma Belenkaya, Christian G. Reich, Clair Blacketer, Patrick B. Ryan, George Hripcsak, Noémie Elhadad, Hua Xu
2023	—	`conf`	Repurposing Drugs for Alzheimer's Diseases through Link Prediction on Biomedical Literature. ICHI Yongkang Xiao, Yu Hou, Huixue Zhou, Gayo Diallo, Marcelo Fiszman, Julian Wolfson, Halil Kilicoglu, You Chen, Hua Xu, William G. Mantyh, Rui Zhang
2023	J	`jnl`	W-procer: Weighted Prototypical Contrastive Learning for Medical Few-Shot Named Entity Recognition. CoRR Mingchen Li, Yang Ye, Jeremy Yeung, Huixue Zhou, Huaiyuan Chu, Rui Zhang
2022	J	`jnl`	A conversational agent system for dietary supplements use. BMC Medical Informatics Decis. Mak. Esha Singh, Anusha Bompelli, Ruyuan Wan, Jiang Bian, Serguei Pakhomov, Rui Zhang
2022	—	`conf`	Annotating Music Therapy, Chiropractic and Aquatic Exercise Using Electronic Health Record. ICHI Huixue Zhou, Greg M. Silverman, Zhongran Niu, Jenzi Silverman, Rui Zhang, Roni Evans, Robin Austin
2022	Misc	`conf`	CIHLex: Complementary and Integrative Health Lexicon. AMIA Huixue Zhou, Robin Austin, Halil Kilicoglu, Sheng-Chieh Lu, Rui Zhang
2022	J	`jnl`	CancerBERT: a cancer domain-specific language model for extracting breast cancer phenotypes from electronic health records. J. Am. Medical Informatics Assoc. Sicheng Zhou, Nan Wang, Liwei Wang, Hongfang Liu, Rui Zhang
2022	—	`conf`	Canine Parvovirus Diagnosis Classification Utilizing Veterinary Free-Text Notes. ICHI Zhecheng Sheng, Emma Bollig, Jennifer Granick, Rui Zhang, Amanda Beaudoin
2022	J	`jnl`	Classifying the lifestyle status for Alzheimer's disease from clinical notes using deep learning with weak supervision. BMC Medical Informatics Decis. Mak. Zitao Shen, Dalton Schutte, Yoonkwon Yi, Anusha Bompelli, Fang Yu, Yanshan Wang, Rui Zhang
2022	J	`jnl`	Discovering novel drug-supplement interactions using SuppKG generated from the biomedical literature. J. Biomed. Informatics Dalton Schutte, Jake Vasilakes, Anusha Bompelli, Yuqi Zhou, Marcelo Fiszman, Hua Xu, Halil Kilicoglu, Jeffrey R. Bishop, Terrence Adam, Rui Zhang
2022	J	`jnl`	Imbalanced Classification in Medical Imaging via Regrouping. CoRR Le Peng, Yash Travadi, Rui Zhang, Ying Cui, Ju Sun
2022	—	`conf`	MTAP - A Distributed Framework for NLP Pipelines. ICHI Benjamin C. Knoll, Reed McEwan, Raymond L. Finzel, Greg M. Silverman, Rui Zhang, Serguei V. S. Pakhomov, Genevieve B. Melton
2022	J	`jnl`	Mining On Alzheimer's Diseases Related Knowledge Graph to Identity Potential AD-related Semantic Triples for Drug Repurposing. CoRR Yi Nian, Xinyue Hu, Rui Zhang, Jingna Feng, Jingcheng Du, Fang Li, Yong Chen, Cui Tao
2022	J	`jnl`	Mining on Alzheimer's diseases related knowledge graph to identity potential AD-related semantic triples for drug repurposing. BMC Bioinform. Yi Nian, Xinyue Hu, Rui Zhang, Jingna Feng, Jingcheng Du, Fang Li, Larry Bu, Yuji Zhang, Yong Chen, Cui Tao
2022	Misc	`conf`	Predicting Cancer Treatments Induced Cardiotoxicity of Breast Cancer Patients Using Electronic Health Record. AMIA Sicheng Zhou, Rui Zhang, Xinpeng Shen, Chetan Shenoy, Anne H. Blaes, György J. Simon
2022	J	`jnl`	Predicting Cancer Treatments Induced Cardiotoxicity of Breast Cancer Patients. CoRR Sicheng Zhou, Rui Zhang, Anne H. Blaes, Chetan Shenoy, György J. Simon
2022	—	`conf`	Racial Disparities in Alzheimer's Disease and Alzheimer's Disease-Related Dementias from the Disease Progression Perspective. ICHI Haozuo Zhao, Haitao Chu, Sicheng Zhou, Fang Yu, Xianghua Luo, Rui Zhang
2022	Misc	`conf`	Semi-automated Clinical Content Curation of COVID-19 Chatbot Remote Patient Monitoring Solution. AMIA Tanya E. Melnik, Joshua A. Thompson, Jake Vasilakes, Tucker Annis, Sicheng Zhou, Dalton Schutte, Genevieve Melton-Meaux, Susan Pleasants, Rui Zhang
2021	J	`jnl`	A Conversational Agent System for Dietary Supplements Use. CoRR Esha Singh, Anusha Bompelli, Ruyuan Wan, Jiang Bian, Serguei Pakhomov, Rui Zhang
2021	J	`jnl`	An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). CoRR Sijia Liu, Andrew Wen, Liwei Wang, Huan He, Sunyang Fu, Robert T. Miller, Andrew E. Williams, Daniel R. Harris, Ramakanth Kavuluru, Mei Liu, Noor Abu-El-Rub, Rui Zhang, John D. Osborne, Masoud Rouhizadeh, Yongqun He, Emily R. Pfaff, Christopher G. Chute, Tim Duong, Melissa A. Haendel, Rafael Fuentes, Peter Szolovits, Hua Xu, Hongfang Liu
2021	Misc	`conf`	Assessing the Use of Prescription Drugs in Obese Respondents in the National Health and Nutrition Examination Survey. AMIA Laura A. Barrett, Aiwen Xing, Elizabeth Steidley, Terrence J. Adam, Rui Zhang, Zhe He
2021	J	`jnl`	CancerBERT: a BERT model for Extracting Breast Cancer Phenotypes from Electronic Health Records. CoRR Sicheng Zhou, Liwei Wang, Nan Wang, Hongfang Liu, Rui Zhang
2021	Misc	`conf`	Deep Learning Approaches for Breast Cancer Characteristics Extraction from Electronic Health Records. AMIA Sicheng Zhou, Liwei Wang, Nan Wang, Sunyang Fu, Chetan Shenoy, Anne H. Blaes, Hongfang Liu, Rui Zhang
2021	J	`jnl`	Deep Learning Models in Detection of Dietary Supplement Adverse Event Signals from Twitter. CoRR Yefeng Wang, Yunpeng Zhao, Jiang Bian, Rui Zhang
2021	J	`jnl`	Deep learning approaches for extracting adverse events and indications of dietary supplements from clinical text. J. Am. Medical Informatics Assoc. Yadan Fan, Sicheng Zhou, Yifan Li, Rui Zhang
2021	J	`jnl`	Discovering novel drug-supplement interactions using a dietary supplements knowledge graph generated from the biomedical literature. CoRR Dalton Schutte, Jake Vasilakes, Anusha Bompelli, Yuqi Zhou, Marcelo Fiszman, Hua Xu, Halil Kilicoglu, Jeffrey R. Bishop, Terrence Adam, Rui Zhang
2021	J	`jnl`	Drug repurposing for COVID-19 via knowledge graph completion. J. Biomed. Informatics Rui Zhang, Dimitar Hristovski, Dalton Schutte, Andrej Kastrin, Marcelo Fiszman, Halil Kilicoglu
2021	J	`jnl`	Extracting Lifestyle Factors for Alzheimer's Disease from Clinical Notes Using Deep Learning with Weak Supervision. CoRR Zitao Shen, Yoonkwon Yi, Anusha Bompelli, Fang Yu, Yanshan Wang, Rui Zhang
2021	—	`conf`	Identification of Dietary Supplement Use from Electronic Health Records Using Transformer-based Language Models. ICHI Sicheng Zhou, Dalton Schutte, Aiwen Xing, Jiyang Chen, Julian Wolfson, Zhe He, Fang Yu, Rui Zhang
2021	J	`jnl`	NLP Methods for Extraction of Symptoms from Unstructured Data for Use in Prognostic COVID-19 Analytic Models. J. Artif. Intell. Res. Greg M. Silverman, Himanshu S. Sahoo, Nicholas Ingraham, Monica Lupei, Michael A. Puskarich, Michael Usher, James Dries, Raymond L. Finzel, Eric Murray, John Sartori, György J. Simon, Rui Zhang, Genevieve B. Melton, Christopher J. Tignanelli, Serguei V. S. Pakhomov
2021	J	`jnl`	Social determinants of health in the era of artificial intelligence with electronic health records: A systematic review. CoRR Anusha Bompelli, Yanshan Wang, Ruyuan Wan, Esha Singh, Yuqi Zhou, Lin Xu, David Oniani, Bhavani Singh Agnikula Kshatriya, Joyce E. Balls-Berry, Rui Zhang
2020	—	`conf`	A Prototype Conversational Agent for Dietary Supplements. ICHI Esha Singh, Anusha Bompelli, Andrew Yang, Andrew Wang, Serguei Pakhomov, Rui Zhang
2020	J	`jnl`	Assessing the enrichment of dietary supplement coverage in the Unified Medical Language System. J. Am. Medical Informatics Assoc. Jake Vasilakes, Anusha Bompelli, Jeffrey R. Bishop, Terrence J. Adam, Olivier Bodenreider, Rui Zhang
2020	B	`conf`	Comparing NLP Systems to Extract Entities of Eligibility Criteria in Dietary Supplements Clinical Trials Using NLP-ADAPT. AIME Anusha Bompelli, Greg M. Silverman, Raymond L. Finzel, Jake Vasilakes, Benjamin Knoll, Serguei Pakhomov, Rui Zhang
2020	Misc	`conf`	Deep Learning Approach to Parse Eligibility Criteria in Dietary Supplements Clinical Trials Following OMOP Common Data Model. AMIA Anusha Bompelli, Jianfu Li, Yiqi Xu, Nan Wang, Yanshan Wang, Terrence J. Adam, Zhe He, Rui Zhang
2020	J	`jnl`	Deep Learning Approaches for Extracting Adverse Events and Indications of Dietary Supplements from Clinical Text. CoRR Yadan Fan, Sicheng Zhou, Yifan Li, Rui Zhang
2020	J	`jnl`	Detecting associations between dietary supplement intake and sentiments within mental disorder tweets. Health Informatics J. Yefeng Wang, Yunpeng Zhao, Jianqiu Zhang, Jiang Bian, Rui Zhang
2020	J	`jnl`	Drug Repurposing for COVID-19 via Knowledge Graph Completion. CoRR Rui Zhang, Dimitar Hristovski, Dalton Schutte, Andrej Kastrin, Marcelo Fiszman, Halil Kilicoglu
2020	J	`jnl`	Mining Twitter to assess the determinants of health behavior toward human papillomavirus vaccination in the United States. J. Am. Medical Informatics Assoc. Hansi Zhang, Christopher Wheldon, Adam G. Dunn, Cui Tao, Jinhai Huo, Rui Zhang, Mattia Prosperi, Yi Guo, Jiang Bian
2020	—	`conf`	Natural Language Processing Methods to Extract Lifestyle Exposures for Alzheimer's Disease from Clinical Notes. ICHI Yoonkwon Yi, Zitao Shen, Anusha Bompelli, Fang Yu, Yanshan Wang, Rui Zhang
2020	J	`jnl`	Selected articles from the Fourth International Workshop on Semantics-Powered Data Mining and Analytics (SEPDA 2019). BMC Medical Informatics Decis. Mak. Zhe He, Cui Tao, Jiang Bian, Rui Zhang
2020	J	`jnl`	When text simplification is not enough: could a graph-based visualization facilitate consumers' comprehension of dietary supplement information? CoRR Xing He, Rui Zhang, Jordan Alpert, Sicheng Zhou, Terrence J. Adam, Aantaki Raisa, Yifan Peng, Hansi Zhang, Jiang Bian
2020	J	`jnl`	iDISK: the integrated DIetary Supplements Knowledge base. J. Am. Medical Informatics Assoc. Rubina F. Rizvi, Jake Vasilakes, Terrence J. Adam, Genevieve B. Melton, Jeffrey R. Bishop, Jiang Bian, Cui Tao, Rui Zhang
2019	J	`jnl`	A Hybrid Approach to Privacy-Preserving Federated Learning - (Extended Abstract). Inform. Spektrum Stacey Truex, Nathalie Baracaldo, Ali Anwar, Thomas Steinke, Heiko Ludwig, Rui Zhang, Yi Zhou
2019	—	`conf`	A Hybrid Approach to Privacy-Preserving Federated Learning. AISec@CCS Stacey Truex, Nathalie Baracaldo, Ali Anwar, Thomas Steinke, Heiko Ludwig, Rui Zhang, Yi Zhou
2019	J	`jnl`	ALOHA: developing an interactive graph-based visualization for dietary supplement knowledge graph through user-centered design. BMC Medical Informatics Decis. Mak. Xing He, Rui Zhang, Rubina F. Rizvi, Jake Vasilakes, Xi Yang, Yi Guo, Zhe He, Mattia Prosperi, Jinhai Huo, Jordan Alpert, Jiang Bian
2019	—	`conf`	Analysis of Twitter to Identify Topics Related to Eating Disorder Symptoms. ICHI Sicheng Zhou, Yunpeng Zhao, Rubina F. Rizvi, Jiang Bian, Ann F. Haynos, Rui Zhang
2019	—	`conf`	Analyzing Social Media Data to Understand Consumer Information Needs on Dietary Supplements. MedInfo Rubina F. Rizvi, Yefeng Wang, Thao Nguyen, Jake Vasilakes, Jiang Bian, Zhe He, Rui Zhang
2019	J	`jnl`	Analyzing Social Media Data to Understand Consumers' Information Needs on Dietary Supplements. CoRR Rubina F. Rizvi, Yefeng Wang, Thao Nguyen, Jake Vasilakes, Jiang Bian, Zhe He, Rui Zhang
2019	Misc	`conf`	Association between Cardiotoxic Chemotherapy and Myocardial Infarction. AMIA Liwei Wang, Suzette J. Bielinski, Paul A. Decker, Jill M. Killian, Nicholas B. Larson, Rui Zhang, Hongfang Liu
2019	—	`conf`	Exploring the Discrepancies in Actual and Perceived Benefits of Dietary Supplements Among Obese Patients. MedInfo Zhe He, Laura A. Barrett, Rubina F. Rizvi, Seyedeh Neelufar Payrovnaziri, Rui Zhang
2019	—	`conf`	Identifying Cardiomegaly in ChestX-ray8 Using Transfer Learning. MedInfo Sicheng Zhou, Xinyuan Zhang, Rui Zhang
2019	J	`jnl`	Mining Twitter to Assess the Determinants of Health Behavior towards Human Papillomavirus Vaccination in the United States. CoRR Hansi Zhang, Christopher Wheldon, Adam G. Dunn, Cui Tao, Jinhai Huo, Rui Zhang, Mattia Prosperi, Yi Guo, Jiang Bian
2019	—	`conf`	Normalizing Dietary Supplement Product Names Using the RxNorm Model. MedInfo Jake Vasilakes, Yadan Fan, Rubina F. Rizvi, Anusha Bompelli, Olivier Bodenreider, Rui Zhang
2019	—	`ed.`	Proceedings of the 4th International Workshop on Semantics-Powered Data Mining and Analytics co-located with the 18th International Semantic Web Conference (ISWC 2019), Aukland, New Zealand, October 27, 2019. SEPDA@ISWC Zhe He, Jiang Bian, Cui Tao, Rui Zhang
2019	J	`jnl`	Selected articles from the Third International Workshop on Semantics-Powered Data Analytics (SEPDA 2018). BMC Medical Informatics Decis. Mak. Zhe He, Jiang Bian, Cui Tao, Rui Zhang
2018	J	`jnl`	A Hybrid Approach to Privacy-Preserving Federated Learning. CoRR Stacey Truex, Nathalie Baracaldo, Ali Anwar, Thomas Steinke, Heiko Ludwig, Rui Zhang
2018	—	`conf`	Detecting Poisoning Attacks on Machine Learning in IoT Environments. ICIOT Nathalie Baracaldo, Bryant Chen, Heiko Ludwig, Jaehoon Amir Safavi, Rui Zhang
2018	—	`conf`	Detecting Signals of Associations Between Dietary Supplement Use and Mental Disorders from Twitter. ICHI Workshops Yefeng Wang, Yunpeng Zhao, Jiang Bian, Rui Zhang
2018	J	`jnl`	Discovering and identifying New York heart association classification from electronic health records. BMC Medical Informatics Decis. Mak. Rui Zhang, Sisi Ma, Liesa Shanahan, Jessica Munroe, Sarah Horn, Stuart M. Speedie
2018	—	`conf`	Estimating New York Heart Association Classification for Heart Failure Patients from Information in the Electronic Health Record. BIBM Sisi Ma, Rui Zhang, Jessica Munroe, Lindsey Shanahan, Sarah Horn, Stuart M. Speedie
2018	J	`jnl`	Introduction: selected extended articles from the 2nd International Workshop on Semantics-Powered Data Analytics (SEPDA 2017). BMC Medical Informatics Decis. Mak. Zhe He, Cui Tao, Jiang Bian, Rui Zhang, Jingshan Huang
2018	—	`conf`	Prototyping an Interactive Visualization of Dietary Supplement Knowledge Graph. BIBM Xing He, Rui Zhang, Rubina F. Rizvi, Jake Vasilakes, Xi Yang, Yi Guo, Zhe He, Mattia Prosperi, Jiang Bian
2018	J	`jnl`	Using natural language processing methods to classify use status of dietary supplements in clinical notes. BMC Medical Informatics Decis. Mak. Yadan Fan, Rui Zhang
2017	—	`conf`	A Study on Phenotyping and Visualizing Black Box Warnings of Antineoplastic Breast Cancer Medications. CRI Deyu Sun, Gopal Sarda, Steven J. Skube, Anne H. Blaes, Rui Zhang, Genevieve B. Melton
2017	J	`jnl`	A cascaded approach for Chinese clinical text de-identification with less annotation effort. J. Biomed. Informatics Zhe Jian, Xusheng Guo, Shijian Liu, Handong Ma, Shaodian Zhang, Rui Zhang, Jianbo Lei
2017	J	`jnl`	Advancing Alzheimer's research: A review of big data promises. Int. J. Medical Informatics Rui Zhang, György J. Simon, Fang Yu
2017	—	`conf`	Automatic methods to extract New York heart association classification from clinical notes. BIBM Rui Zhang, Sisi Ma, Liesa Shanahan, Jessica Munroe, Sarah Horn, Stuart M. Speedie
2017	Misc	`conf`	Causal Phenotyping for Susceptibility to Cardiotoxicity from Antineoplastic Breast Cancer Medications. AMIA Deyu Sun, György J. Simon, Steven J. Skube, Anne H. Blaes, Genevieve B. Melton, Rui Zhang
2017	—	`conf`	Classifying Supplement Use Status in Clinical Notes. CRI Yadan Fan, Lu He, Serguei V. S. Pakhomov, Genevieve B. Melton, Rui Zhang
2017	—	`conf`	Detecting Signals of Interactions Between Warfarin and Dietary Supplements in Electronic Health Records. MedInfo Yadan Fan, Terrence J. Adam, Reed McEwan, Serguei V. S. Pakhomov, Genevieve B. Melton, Rui Zhang
2017	J	`jnl`	Detecting clinically relevant new information in clinical notes across specialties and settings. BMC Medical Informatics Decis. Mak. Rui Zhang, Serguei V. S. Pakhomov, Elliot G. Arsoniadis, Janet T. Lee, Yan Wang, Genevieve B. Melton
2017	—	`conf`	Evaluating automatic methods to extract patients' supplement use from clinical reports. BIBM Yadan Fan, Lu He, Rui Zhang
2017	—	`conf`	Mining Adverse Events of Dietary Supplements from Product Labels by Topic Modeling. MedInfo Yefeng Wang, Divya R. Gunashekar, Terrence J. Adam, Rui Zhang
2017	—	`conf`	Phenotyping and Visualizing Infusion-Related Reactions for Breast Cancer Patients. MedInfo Deyu Sun, Gopal Sarda, Steven J. Skube, Anne H. Blaes, Saif S. Khairat, Genevieve B. Melton, Rui Zhang
2016	Misc	`conf`	Assessing Metadata Quality of a Federally Sponsored Health Data Repository. AMIA David T. Marc, James Beattie, Vitaly Herasevich, Lael C. Gatewood, Rui Zhang
2016	—	`conf`	Classification of use status for dietary supplements in clinical notes. BIBM Yadan Fan, Lu He, Rui Zhang
2016	Misc	`conf`	Term Coverage of Dietary Supplements Ingredients in Product Labels. AMIA Yefeng Wang, Rui Zhang, Terrence J. Adam
2015	Misc	`conf`	Evaluating Term Coverage of Herbal and Dietary Supplements in Electronic Health Records. AMIA Rui Zhang, Nivedha Manohar, Elliot G. Arsoniadis, Yan Wang, Terrence J. Adam, Serguei V. S. Pakhomov, Genevieve B. Melton
2015	—	`conf`	Evaluation of Herbal and Dietary Supplement Resource Term Coverage. MedInfo Nivedha Manohar, Terrence J. Adam, Serguei V. S. Pakhomov, Genevieve B. Melton, Rui Zhang
2015	J	`jnl`	Healthcare Data Analytics. Chandan K. Reddy and Charu C. Aggarwal. Boca Raton, FL: Chapman & Hall/CRC Press (2015) 724 pp. J. Biomed. Informatics Rui Zhang
2015	—	`conf`	Indexing Publicly Available Health Data with Medical Subject Headings (MeSH): An Evaluation of Term Coverage. MedInfo David T. Marc, Rui Zhang, James Beattie, Lael C. Gatewood, Saif S. Khairat
2014	Misc	`conf`	Evolving Career Landscapes in Biomedical and Health Informatics. AMIA Rui Zhang, William R. Hersh, Genevieve B. Melton, Yang Huang, Laura K. Wiley, Julie Doberne, Nawanan Theera-Ampornpunt
2014	Misc	`conf`	Using Language Models to Identify Relevant New Information in Inpatient Clinical Note. AMIA Rui Zhang, Serguei V. S. Pakhomov, Janet T. Lee, Genevieve B. Melton
2014	J	`jnl`	Using semantic predications to uncover drug-drug interactions in clinical data. J. Biomed. Informatics Rui Zhang, Michael J. Cairelli, Marcelo Fiszman, Graciela Rosemblat, Halil Kilicoglu, Thomas C. Rindflesch, Serguei V. S. Pakhomov, Genevieve B. Melton
2013	—	`conf`	Navigating Longitudinal Clinical Notes with an Automated Method for Detecting New Information. MedInfo Rui Zhang, Serguei V. S. Pakhomov, Janet T. Lee, Genevieve B. Melton
2013	Misc	`conf`	Preparing for Informatics Careers and Trends in the Age of Meaningful Use. AMIA Nawanan Theera-Ampornpunt, Kai Zheng, Yang Gong, Jennifer J. Boehne, David C. Kaelber, Rui Zhang, Sashank Kaushik, Ryan Shaw, Tiffany Kelley, Saif S. Khairat
2012	Misc	`conf`	Automated Assessment of Medical Training Evaluation Text. AMIA Rui Zhang, Serguei V. S. Pakhomov, Sophia Gladding, Michael Aylward, Emily Borman-Shoap, Genevieve B. Melton
2012	—	`conf`	Automated identification of relevant new information in clinical narrative. IHI Rui Zhang, Serguei V. S. Pakhomov, Genevieve B. Melton