Automated Assessment of Medical Training Evaluation Text. - Rui Zhang 028; Serguei V. S. Pakhomov; Sophia Gladding; Michael Aylward; Emily Borman-Shoap; Genevieve B. Melton (AMIA, 2012)

Automated identification of relevant new information in clinical narrative. - Rui Zhang 028; Serguei V. S. Pakhomov; Genevieve B. Melton (IHI, 2012)

Preparing for Informatics Careers and Trends in the Age of Meaningful Use. - Nawanan Theera-Ampornpunt; Kai Zheng 002; Yang Gong; Jennifer J. Boehne; David C. Kaelber; Rui Zhang 028; Sashank Kaushik; Ryan Shaw 002; Tiffany Kelley; Saif S. Khairat (AMIA, 2013)

Navigating Longitudinal Clinical Notes with an Automated Method for Detecting New Information. - Rui Zhang 028; Serguei V. S. Pakhomov; Janet T. Lee; Genevieve B. Melton (MedInfo, 2013)

Evolving Career Landscapes in Biomedical and Health Informatics. - Rui Zhang 028; William R. Hersh; Genevieve B. Melton; Yang Huang; Laura K. Wiley; Julie Doberne; Nawanan Theera-Ampornpunt (AMIA, 2014)

Using Language Models to Identify Relevant New Information in Inpatient Clinical Note. - Rui Zhang 028; Serguei V. S. Pakhomov; Janet T. Lee; Genevieve B. Melton (AMIA, 2014)

Using semantic predications to uncover drug-drug interactions in clinical data. - Rui Zhang 028; Michael J. Cairelli; Marcelo Fiszman; Graciela Rosemblat; Halil Kilicoglu; Thomas C. Rindflesch; Serguei V. S. Pakhomov; Genevieve B. Melton (J. Biomed. Informatics, 2014)

Evaluating Term Coverage of Herbal and Dietary Supplements in Electronic Health Records. - Rui Zhang 028; Nivedha Manohar; Elliot G. Arsoniadis; Yan Wang 025; Terrence J. Adam; Serguei V. S. Pakhomov; Genevieve B. Melton (AMIA, 2015)

Evaluation of Herbal and Dietary Supplement Resource Term Coverage. - Nivedha Manohar; Terrence J. Adam; Serguei V. S. Pakhomov; Genevieve B. Melton; Rui Zhang 028 (MedInfo, 2015)

Indexing Publicly Available Health Data with Medical Subject Headings (MeSH): An Evaluation of Term Coverage. - David T. Marc; Rui Zhang 028; James Beattie 002; Lael C. Gatewood; Saif S. Khairat (MedInfo, 2015)

Healthcare Data Analytics. Chandan K. Reddy and Charu C. Aggarwal. Boca Raton, FL: Chapman & Hall/CRC Press (2015) 724 pp. - Rui Zhang 028 (J. Biomed. Informatics, 2015)

Assessing Metadata Quality of a Federally Sponsored Health Data Repository. - David T. Marc; James Beattie 002; Vitaly Herasevich; Lael C. Gatewood; Rui Zhang 028 (AMIA, 2016)

Term Coverage of Dietary Supplements Ingredients in Product Labels. - Yefeng Wang; Rui Zhang 028; Terrence J. Adam (AMIA, 2016)

Classification of use status for dietary supplements in clinical notes. - Yadan Fan; Lu He; Rui Zhang 028 (BIBM, 2016)

Causal Phenotyping for Susceptibility to Cardiotoxicity from Antineoplastic Breast Cancer Medications. - Deyu Sun; György J. Simon; Steven J. Skube; Anne H. Blaes; Genevieve B. Melton; Rui Zhang 028 (AMIA, 2017)

Evaluating automatic methods to extract patients' supplement use from clinical reports. - Yadan Fan; Lu He; Rui Zhang 028 (BIBM, 2017)

Automatic methods to extract New York heart association classification from clinical notes. - Rui Zhang 028; Sisi Ma; Liesa Shanahan; Jessica Munroe; Sarah Horn; Stuart M. Speedie (BIBM, 2017)

Classifying Supplement Use Status in Clinical Notes. - Yadan Fan; Lu He; Serguei V. S. Pakhomov; Genevieve B. Melton; Rui Zhang 028 (CRI, 2017)

A Study on Phenotyping and Visualizing Black Box Warnings of Antineoplastic Breast Cancer Medications. - Deyu Sun; Gopal Sarda; Steven J. Skube; Anne H. Blaes; Rui Zhang 028; Genevieve B. Melton (CRI, 2017)

Detecting Signals of Interactions Between Warfarin and Dietary Supplements in Electronic Health Records. - Yadan Fan; Terrence J. Adam; Reed McEwan; Serguei V. S. Pakhomov; Genevieve B. Melton; Rui Zhang 028 (MedInfo, 2017)

Phenotyping and Visualizing Infusion-Related Reactions for Breast Cancer Patients. - Deyu Sun; Gopal Sarda; Steven J. Skube; Anne H. Blaes; Saif S. Khairat; Genevieve B. Melton; Rui Zhang 028 (MedInfo, 2017)

Mining Adverse Events of Dietary Supplements from Product Labels by Topic Modeling. - Yefeng Wang; Divya R. Gunashekar; Terrence J. Adam; Rui Zhang 028 (MedInfo, 2017)

Advancing Alzheimer's research: A review of big data promises. - Rui Zhang 028; György J. Simon; Fang Yu 005 (Int. J. Medical Informatics, 2017)

A cascaded approach for Chinese clinical text de-identification with less annotation effort. - Zhe Jian; Xusheng Guo; Shijian Liu; Handong Ma; Shaodian Zhang; Rui Zhang 028; Jianbo Lei (J. Biomed. Informatics, 2017)

Detecting clinically relevant new information in clinical notes across specialties and settings. - Rui Zhang 028; Serguei V. S. Pakhomov; Elliot G. Arsoniadis; Janet T. Lee; Yan Wang 025; Genevieve B. Melton (BMC Medical Informatics Decis. Mak., 2017)

Prototyping an Interactive Visualization of Dietary Supplement Knowledge Graph. - Xing He 003; Rui Zhang 028; Rubina F. Rizvi; Jake Vasilakes; Xi Yang 015; Yi Guo 005; Zhe He 001; Mattia Prosperi; Jiang Bian 001 (BIBM, 2018)

Estimating New York Heart Association Classification for Heart Failure Patients from Information in the Electronic Health Record. - Sisi Ma; Rui Zhang 028; Jessica Munroe; Lindsey Shanahan; Sarah Horn; Stuart M. Speedie (BIBM, 2018)

Detecting Signals of Associations Between Dietary Supplement Use and Mental Disorders from Twitter. - Yefeng Wang; Yunpeng Zhao; Jiang Bian 001; Rui Zhang 028 (ICHI Workshops, 2018)

Detecting Poisoning Attacks on Machine Learning in IoT Environments. - Nathalie Baracaldo; Bryant Chen; Heiko Ludwig; Jaehoon Amir Safavi; Rui Zhang 028 (ICIOT, 2018)

A Hybrid Approach to Privacy-Preserving Federated Learning. - Stacey Truex; Nathalie Baracaldo; Ali Anwar 001; Thomas Steinke 002; Heiko Ludwig; Rui Zhang 028 (CoRR, 2018)

Using natural language processing methods to classify use status of dietary supplements in clinical notes. - Yadan Fan; Rui Zhang 028 (BMC Medical Informatics Decis. Mak., 2018)

Introduction: selected extended articles from the 2nd International Workshop on Semantics-Powered Data Analytics (SEPDA 2017). - Zhe He 001; Cui Tao; Jiang Bian 001; Rui Zhang 028; Jingshan Huang (BMC Medical Informatics Decis. Mak., 2018)

Discovering and identifying New York heart association classification from electronic health records. - Rui Zhang 028; Sisi Ma; Liesa Shanahan; Jessica Munroe; Sarah Horn; Stuart M. Speedie (BMC Medical Informatics Decis. Mak., 2018)

Association between Cardiotoxic Chemotherapy and Myocardial Infarction. - Liwei Wang 010; Suzette J. Bielinski; Paul A. Decker; Jill M. Killian; Nicholas B. Larson; Rui Zhang 028; Hongfang Liu (AMIA, 2019)

A Hybrid Approach to Privacy-Preserving Federated Learning. - Stacey Truex; Nathalie Baracaldo; Ali Anwar 001; Thomas Steinke 002; Heiko Ludwig; Rui Zhang 028; Yi Zhou 015 (AISec@CCS, 2019)

Analysis of Twitter to Identify Topics Related to Eating Disorder Symptoms. - Sicheng Zhou; Yunpeng Zhao; Rubina F. Rizvi; Jiang Bian 001; Ann F. Haynos; Rui Zhang 028 (ICHI, 2019)

Exploring the Discrepancies in Actual and Perceived Benefits of Dietary Supplements Among Obese Patients. - Zhe He 001; Laura A. Barrett; Rubina F. Rizvi; Seyedeh Neelufar Payrovnaziri; Rui Zhang 028 (MedInfo, 2019)

Analyzing Social Media Data to Understand Consumer Information Needs on Dietary Supplements. - Rubina F. Rizvi; Yefeng Wang; Thao Nguyen; Jake Vasilakes; Jiang Bian 001; Zhe He 001; Rui Zhang 028 (MedInfo, 2019)

Normalizing Dietary Supplement Product Names Using the RxNorm Model. - Jake Vasilakes; Yadan Fan; Rubina F. Rizvi; Anusha Bompelli; Olivier Bodenreider; Rui Zhang 028 (MedInfo, 2019)

Identifying Cardiomegaly in ChestX-ray8 Using Transfer Learning. - Sicheng Zhou; Xinyuan Zhang 006; Rui Zhang 028 (MedInfo, 2019)

Analyzing Social Media Data to Understand Consumers' Information Needs on Dietary Supplements. - Rubina F. Rizvi; Yefeng Wang; Thao Nguyen; Jake Vasilakes; Jiang Bian 001; Zhe He 001; Rui Zhang 028 (CoRR, 2019)

Mining Twitter to Assess the Determinants of Health Behavior towards Human Papillomavirus Vaccination in the United States. - Hansi Zhang; Christopher Wheldon; Adam G. Dunn; Cui Tao; Jinhai Huo; Rui Zhang 028; Mattia Prosperi; Yi Guo 005; Jiang Bian 001 (CoRR, 2019)

A Hybrid Approach to Privacy-Preserving Federated Learning - (Extended Abstract). - Stacey Truex; Nathalie Baracaldo; Ali Anwar 001; Thomas Steinke 002; Heiko Ludwig; Rui Zhang 028; Yi Zhou 015 (Inform. Spektrum, 2019)

Selected articles from the Third International Workshop on Semantics-Powered Data Analytics (SEPDA 2018). - Zhe He 001; Jiang Bian 001; Cui Tao; Rui Zhang 028 (BMC Medical Informatics Decis. Mak., 2019)

ALOHA: developing an interactive graph-based visualization for dietary supplement knowledge graph through user-centered design. - Xing He 003; Rui Zhang 028; Rubina F. Rizvi; Jake Vasilakes; Xi Yang 015; Yi Guo 005; Zhe He 001; Mattia Prosperi; Jinhai Huo; Jordan Alpert; Jiang Bian 001 (BMC Medical Informatics Decis. Mak., 2019)

Comparing NLP Systems to Extract Entities of Eligibility Criteria in Dietary Supplements Clinical Trials Using NLP-ADAPT. - Anusha Bompelli; Greg M. Silverman; Raymond L. Finzel; Jake Vasilakes; Benjamin Knoll; Serguei Pakhomov; Rui Zhang 028 (AIME, 2020)

Deep Learning Approach to Parse Eligibility Criteria in Dietary Supplements Clinical Trials Following OMOP Common Data Model. - Anusha Bompelli; Jianfu Li; Yiqi Xu; Nan Wang; Yanshan Wang; Terrence J. Adam; Zhe He 001; Rui Zhang 028 (AMIA, 2020)

A Prototype Conversational Agent for Dietary Supplements. - Esha Singh; Anusha Bompelli; Andrew Yang; Andrew Wang; Serguei Pakhomov; Rui Zhang 028 (ICHI, 2020)

Natural Language Processing Methods to Extract Lifestyle Exposures for Alzheimer's Disease from Clinical Notes. - Yoonkwon Yi; Zitao Shen; Anusha Bompelli; Fang Yu 005; Yanshan Wang; Rui Zhang 028 (ICHI, 2020)

When text simplification is not enough: could a graph-based visualization facilitate consumers' comprehension of dietary supplement information? - Xing He 003; Rui Zhang 028; Jordan Alpert; Sicheng Zhou; Terrence J. Adam; Aantaki Raisa; Yifan Peng 002; Hansi Zhang; Jiang Bian 001 (CoRR, 2020)

Detecting associations between dietary supplement intake and sentiments within mental disorder tweets. - Yefeng Wang; Yunpeng Zhao; Jianqiu Zhang; Jiang Bian 001; Rui Zhang 028 (Health Informatics J., 2020)

iDISK: the integrated DIetary Supplements Knowledge base. - Rubina F. Rizvi; Jake Vasilakes; Terrence J. Adam; Genevieve B. Melton; Jeffrey R. Bishop; Jiang Bian 001; Cui Tao; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2020)

Assessing the enrichment of dietary supplement coverage in the Unified Medical Language System. - Jake Vasilakes; Anusha Bompelli; Jeffrey R. Bishop; Terrence J. Adam; Olivier Bodenreider; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2020)

Mining Twitter to assess the determinants of health behavior toward human papillomavirus vaccination in the United States. - Hansi Zhang; Christopher Wheldon; Adam G. Dunn; Cui Tao; Jinhai Huo; Rui Zhang 028; Mattia Prosperi; Yi Guo 005; Jiang Bian 001 (J. Am. Medical Informatics Assoc., 2020)

Selected articles from the Fourth International Workshop on Semantics-Powered Data Mining and Analytics (SEPDA 2019). - Zhe He 001; Cui Tao; Jiang Bian 001; Rui Zhang 028 (BMC Medical Informatics Decis. Mak., 2020)

Assessing the Use of Prescription Drugs in Obese Respondents in the National Health and Nutrition Examination Survey. - Laura A. Barrett; Aiwen Xing; Elizabeth Steidley; Terrence J. Adam; Rui Zhang 028; Zhe He 001 (AMIA, 2021)

Deep Learning Approaches for Breast Cancer Characteristics Extraction from Electronic Health Records. - Sicheng Zhou; Liwei Wang 010; Nan Wang; Sunyang Fu; Chetan Shenoy; Anne H. Blaes; Hongfang Liu; Rui Zhang 028 (AMIA, 2021)

Identification of Dietary Supplement Use from Electronic Health Records Using Transformer-based Language Models. - Sicheng Zhou; Dalton Schutte; Aiwen Xing; Jiyang Chen; Julian Wolfson; Zhe He 001; Fang Yu 005; Rui Zhang 028 (ICHI, 2021)

Extracting Lifestyle Factors for Alzheimer's Disease from Clinical Notes Using Deep Learning with Weak Supervision. - Zitao Shen; Yoonkwon Yi; Anusha Bompelli; Fang Yu 005; Yanshan Wang; Rui Zhang 028 (CoRR, 2021)

Social determinants of health in the era of artificial intelligence with electronic health records: A systematic review. - Anusha Bompelli; Yanshan Wang; Ruyuan Wan; Esha Singh; Yuqi Zhou; Lin Xu; David Oniani; Bhavani Singh Agnikula Kshatriya; Joyce E. Balls-Berry; Rui Zhang 028 (CoRR, 2021)

Deep Learning Models in Detection of Dietary Supplement Adverse Event Signals from Twitter. - Yefeng Wang; Yunpeng Zhao; Jiang Bian 001; Rui Zhang 028 (CoRR, 2021)

Discovering novel drug-supplement interactions using a dietary supplements knowledge graph generated from the biomedical literature. - Dalton Schutte; Jake Vasilakes; Anusha Bompelli; Yuqi Zhou; Marcelo Fiszman; Hua Xu 001; Halil Kilicoglu; Jeffrey R. Bishop; Terrence Adam; Rui Zhang 028 (CoRR, 2021)

CancerBERT: a BERT model for Extracting Breast Cancer Phenotypes from Electronic Health Records. - Sicheng Zhou; Liwei Wang 010; Nan Wang; Hongfang Liu; Rui Zhang 028 (CoRR, 2021)

An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). - Sijia Liu 002; Andrew Wen; Liwei Wang 010; Huan He; Sunyang Fu; Robert T. Miller; Andrew E. Williams; Daniel R. Harris; Ramakanth Kavuluru; Mei Liu; Noor Abu-El-Rub; Rui Zhang 028; et al. (CoRR, 2021)

NLP Methods for Extraction of Symptoms from Unstructured Data for Use in Prognostic COVID-19 Analytic Models. - 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 028; et al. (J. Artif. Intell. Res., 2021)

Deep learning approaches for extracting adverse events and indications of dietary supplements from clinical text. - Yadan Fan; Sicheng Zhou; Yifan Li; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2021)

Drug repurposing for COVID-19 via knowledge graph completion. - Rui Zhang 028; Dimitar Hristovski; Dalton Schutte; Andrej Kastrin; Marcelo Fiszman; Halil Kilicoglu (J. Biomed. Informatics, 2021)

Semi-automated Clinical Content Curation of COVID-19 Chatbot Remote Patient Monitoring Solution. - Tanya E. Melnik; Joshua A. Thompson; Jake Vasilakes; Tucker Annis; Sicheng Zhou; Dalton Schutte; Genevieve Melton-Meaux; Susan Pleasants; Rui Zhang 028 (AMIA, 2022)

CIHLex: Complementary and Integrative Health Lexicon. - Huixue Zhou; Robin Austin; Halil Kilicoglu; Sheng-Chieh Lu; Rui Zhang 028 (AMIA, 2022)

MTAP - A Distributed Framework for NLP Pipelines. - Benjamin C. Knoll; Reed McEwan; Raymond L. Finzel; Greg M. Silverman; Rui Zhang 028; Serguei V. S. Pakhomov; Genevieve B. Melton (ICHI, 2022)

Canine Parvovirus Diagnosis Classification Utilizing Veterinary Free-Text Notes. - Zhecheng Sheng; Emma Bollig; Jennifer Granick; Rui Zhang 028; Amanda Beaudoin (ICHI, 2022)

Racial Disparities in Alzheimer's Disease and Alzheimer's Disease-Related Dementias from the Disease Progression Perspective. - Haozuo Zhao; Haitao Chu; Sicheng Zhou; Fang Yu 005; Xianghua Luo; Rui Zhang 028 (ICHI, 2022)

Annotating Music Therapy, Chiropractic and Aquatic Exercise Using Electronic Health Record. - Huixue Zhou; Greg M. Silverman; Zhongran Niu; Jenzi Silverman; Rui Zhang 028; Roni Evans; Robin Austin (ICHI, 2022)

Mining on Alzheimer's diseases related knowledge graph to identity potential AD-related semantic triples for drug repurposing. - Yi Nian; Xinyue Hu 002; Rui Zhang 028; Jingna Feng; Jingcheng Du; Fang Li 011; Larry Bu; Yuji Zhang 001; Yong Chen 016; Cui Tao (BMC Bioinform., 2022)

Predicting Cancer Treatments Induced Cardiotoxicity of Breast Cancer Patients. - Sicheng Zhou; Rui Zhang 028; Anne H. Blaes; Chetan Shenoy; György J. Simon (CoRR, 2022)

Mining On Alzheimer's Diseases Related Knowledge Graph to Identity Potential AD-related Semantic Triples for Drug Repurposing. - Yi Nian; Xinyue Hu 002; Rui Zhang 028; Jingna Feng; Jingcheng Du; Fang Li 011; Yong Chen 016; Cui Tao (CoRR, 2022)

Imbalanced Classification in Medical Imaging via Regrouping. - Le Peng; Yash Travadi; Rui Zhang 028; Ying Cui; Ju Sun (CoRR, 2022)

CancerBERT: a cancer domain-specific language model for extracting breast cancer phenotypes from electronic health records. - Sicheng Zhou; Nan Wang; Liwei Wang 010; Hongfang Liu; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2022)

Discovering novel drug-supplement interactions using SuppKG generated from the biomedical literature. - Dalton Schutte; Jake Vasilakes; Anusha Bompelli; Yuqi Zhou; Marcelo Fiszman; Hua Xu 001; Halil Kilicoglu; Jeffrey R. Bishop; Terrence Adam; Rui Zhang 028 (J. Biomed. Informatics, 2022)

Classifying the lifestyle status for Alzheimer's disease from clinical notes using deep learning with weak supervision. - Zitao Shen; Dalton Schutte; Yoonkwon Yi; Anusha Bompelli; Fang Yu 005; Yanshan Wang; Rui Zhang 028 (BMC Medical Informatics Decis. Mak., 2022)

A conversational agent system for dietary supplements use. - Esha Singh; Anusha Bompelli; Ruyuan Wan; Jiang Bian 001; Serguei Pakhomov; Rui Zhang 028 (BMC Medical Informatics Decis. Mak., 2022)

Assessing ChatGPT for Text Summarization, Simplification and Extraction Tasks. - Raseen Tariq; Sheza Malik; Mousumi Roy; Meena Z. Islam; Umair Rasheed; Jiang Bian 001; Kai Zheng 002; Rui Zhang 028 (ICHI, 2023)

Repurposing Drugs for Alzheimer's Diseases through Link Prediction on Biomedical Literature. - Yongkang Xiao; Yu Hou; Huixue Zhou; Gayo Diallo; Marcelo Fiszman; Julian Wolfson; Halil Kilicoglu; You Chen 001; Hua Xu 001; William G. Mantyh; Rui Zhang 028 (ICHI, 2023)

Advanced Care Planning Content Encoding with Natural Language Processing. - 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 028; Genevieve B. Melton (MedInfo, 2023)

A Symptom-Based Natural Language Processing Surveillance Pipeline for Post-COVID-19 Patients. - Greg M. Silverman; Geetanjali Rajamani; Nicholas E. Ingraham; James K. Glover; Himanshu S. Sahoo; Michael Usher; Rui Zhang 028; Farha Ikramuddin; Tanya E. Melnik; Genevieve B. Melton; Christopher J. Tignanelli (MedInfo, 2023)

A Cross-institutional Evaluation on Breast Cancer Phenotyping NLP Algorithms on Electronic Health Records. - Sicheng Zhou; Nan Wang; Liwei Wang 010; Ju Sun; Anne H. Blaes; Hongfang Liu; Rui Zhang 028 (CoRR, 2023)

Large language models in biomedical natural language processing: benchmarks, baselines, and recommendations. - Qingyu Chen 001; Jingcheng Du; Yan Hu; Vipina Kuttichi Keloth; Xueqing Peng; Kalpana Raja; Rui Zhang 028; Zhiyong Lu; Hua Xu 001 (CoRR, 2023)

W-procer: Weighted Prototypical Contrastive Learning for Medical Few-Shot Named Entity Recognition. - Mingchen Li; Yang Ye; Jeremy Yeung; Huixue Zhou; Huaiyuan Chu; Rui Zhang 028 (CoRR, 2023)

How far is Language Model from 100% Few-shot Named Entity Recognition in Medical Domain. - Mingchen Li; Rui Zhang 028 (CoRR, 2023)

A Systematic Evaluation of Federated Learning on Biomedical Natural Language Processing. - Le Peng; Sicheng Zhou; Jiandong Chen; Rui Zhang 028; Ziyue Xu; Ju Sun (CoRR, 2023)

PeTailor: Improving Large Language Model by Tailored Chunk Scorer in Biomedical Triple Extraction. - Mingchen Li; Ming Chen; Huixue Zhou; Rui Zhang 028 (CoRR, 2023)

Editorial: Explainable artificial intelligence for critical healthcare applications. - Zhe He 001; Rui Zhang 028; Gayo Diallo; Zhengxing Huang; Benjamin S. Glicksberg (Frontiers Artif. Intell., 2023)

Representing and utilizing clinical textual data for real world studies: An OHDSI approach. - Vipina Kuttichi Keloth; Juan M. Banda; Michael J. Gurley; Paul M. Heider; Georgina Kennedy; Hongfang Liu; Feifan Liu; Timothy Miller 002; Karthik Natarajan; Olga V. Patterson; Yifan Peng 002; Kalpana Raja; et al. (J. Biomed. Informatics, 2023)

Extracting Complementary and Integrative Health Approaches in Electronic Health Records. - Huixue Zhou; Greg M. Silverman; Zhongran Niu; Jenzi Silverman; Roni Evans; Robin Austin; Rui Zhang 028 (J. Heal. Informatics Res., 2023)

An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). - Sijia Liu 002; Andrew Wen; Liwei Wang 010; Huan He; Sunyang Fu; Robert T. Miller; Andrew E. Williams; Daniel R. Harris; Ramakanth Kavuluru; Mei Liu; Noor Abu-El-Rub; Dalton Schutte; et al. (J. Am. Medical Informatics Assoc., 2023)

Zero-Shot Link Prediction in Knowledge Graphs with Large Language Models. - Mingchen Li; Chen Ling 003; Rui Zhang 028; Liang Zhao 002 (ICDM, 2024)

Denoising-Aware Contrastive Learning for Noisy Time Series. - Shuang Zhou 012; Daochen Zha; Xiao Shen 001; Xiao Huang 001; Rui Zhang 028; Korris Fu-Lai Chung (IJCAI, 2024)

A Condensed Transition Graph Framework for Zero-shot Link Prediction with Large Language Models. - Mingchen Li; Chen Ling 003; Rui Zhang 028; Liang Zhao 002 (CoRR, 2024)

Benchmarking Retrieval-Augmented Large Language Models in Biomedical NLP: Application, Robustness, and Self-Awareness. - Mingchen Li; Zaifu Zhan; Han Yang; Yongkang Xiao; Jiatan Huang; Rui Zhang 028 (CoRR, 2024)

CancerLLM: A Large Language Model in Cancer Domain. - Mingchen Li; Anne H. Blaes; Steven Johnson; Hongfang Liu; Hua Xu 001; Rui Zhang 028 (CoRR, 2024)

Interpretable Differential Diagnosis with Dual-Inference Large Language Models. - Shuang Zhou 012; Sirui Ding; Jiashuo Wang; Mingquan Lin; Genevieve B. Melton; Rui Zhang 028 (CoRR, 2024)

Large Language Models for Disease Diagnosis: A Scoping Review. - Shuang Zhou 012; Zidu Xu; Mian Zhang; Chunpu Xu; Yawen Guo; Zaifu Zhan; Sirui Ding; Jiashuo Wang; Kaishuai Xu; Yi Fang; Liqiao Xia; Jeremy Yeung; et al. (CoRR, 2024)

Environment Scan of Generative AI Infrastructure for Clinical and Translational Science. - Betina Idnay; Zihan Xu; William G. Adams; Mohammad Adibuzzaman; Nicholas R. Anderson 001; Neil Bahroos; Douglas S. Bell; Cody Bumgardner; Thomas R. Campion Jr.; Victor M. Castro; James J. Cimino; I. Glenn Cohen; et al. (CoRR, 2024)

Towards Better Multi-task Learning: A Framework for Optimizing Dataset Combinations in Large Language Models. - Zaifu Zhan; Rui Zhang 028 (CoRR, 2024)

A taxonomy for advancing systematic error analysis in multi-site electronic health record-based clinical concept extraction. - Sunyang Fu; Liwei Wang 010; Huan He; Andrew Wen; Nansu Zong; Anamika Kumari; Feifan Liu; Sicheng Zhou; Rui Zhang 028; Chenyu Li; Yanshan Wang; Jennifer St Sauver; et al. (J. Am. Medical Informatics Assoc., 2024)

RT: a Retrieving and Chain-of-Thought framework for few-shot medical named entity recognition. - Mingchen Li; Huixue Zhou; Han Yang; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2024)

A review of reinforcement learning for natural language processing and applications in healthcare. - Ying Liu; Haozhu Wang; Huixue Zhou; Mingchen Li; Yu Hou; Sicheng Zhou; Fang Wang; Rama Hoetzlein; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2024)

Multi-modality risk prediction of cardiovascular diseases for breast cancer cohort in the All of Us Research Program. - Han Yang; Sicheng Zhou; Zexi Rao; Chen Zhao; Erjia Cui; Chetan Shenoy; Anne H. Blaes; Nishitha Paidimukkala; Jinhua Wang; Jue Hou; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2024)

LEAP: LLM instruction-example adaptive prompting framework for biomedical relation extraction. - Huixue Zhou; Mingchen Li; Yongkang Xiao; Han Yang; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2024)

Enhancing the coverage of SemRep using a relation classification approach. - Shufan Ming; Rui Zhang 028; Halil Kilicoglu (J. Biomed. Informatics, 2024)

FuseLinker: Leveraging LLM's pre-trained text embeddings and domain knowledge to enhance GNN-based link prediction on biomedical knowledge graphs. - Yongkang Xiao; Sinian Zhang; Huixue Zhou; Mingchen Li; Han Yang; Rui Zhang 028 (J. Biomed. Informatics, 2024)

An in-depth evaluation of federated learning on biomedical natural language processing for information extraction. - Le Peng; Gaoxiang Luo; Sicheng Zhou; Jiandong Chen; Ziyue Xu; Ju Sun; Rui Zhang 028 (npj Digit. Medicine, 2024)

Complementary and Integrative Health Information in the literature: its lexicon and named entity recognition. - Huixue Zhou; Robin Austin; Sheng-Chieh Lu; Greg M. Silverman; Yuqi Zhou; Halil Kilicoglu; Hua Xu 001; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2024)

The Efficiency vs. Accuracy Trade-off: Optimizing RAG-Enhanced LLM Recommender Systems Using Multi-Head Early Exit. - Huixue Zhou; Hengrui Gu 002; Zaifu Zhan; Xi Liu; Kaixiong Zhou; Yongkang Xiao; Mingfu Liang; Srinivas Prasad Govindan; Piyush Chawla; Jiyan Yang; Xiangfei Meng; Huayu Li; et al. (ACL (1), 2025)

External Large Foundation Model: How to Efficiently Serve Trillions of Parameters for Online Ads Recommendation. - Mingfu Liang; Xi Liu; Rong Jin 001; Boyang Liu; Qiuling Suo; Qinghai Zhou; Song Zhou; Laming Chen; Hua Zheng; Zhiyuan Li; Shali Jiang 003; Jiyan Yang; et al. (WWW (Companion Volume), 2025)

Comparison of six natural language processing approaches to assessing firearm access in Veterans Health Administration electronic health records. - 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; et al. (J. Am. Medical Informatics Assoc., 2025)

RAMIE: retrieval-augmented multi-task information extraction with large language models on dietary supplements. - Zaifu Zhan; Shuang Zhou 012; Mingchen Li; Rui Zhang 028 (J. Am. Medical Informatics Assoc., 2025)

BiomedRAG: A retrieval augmented large language model for biomedicine. - Mingchen Li; Halil Kilicoglu; Hua Xu 001; Rui Zhang 028 (J. Biomed. Informatics, 2025)

The Efficiency vs. Accuracy Trade-off: Optimizing RAG-Enhanced LLM Recommender Systems Using Multi-Head Early Exit. - Huixue Zhou; Hengrui Gu 002; Xi Liu; Kaixiong Zhou; Mingfu Liang; Yongkang Xiao; Srinivas Govindan; Piyush Chawla; Jiyan Yang; Xiangfei Meng; Huayu Li; Buyun Zhang; et al. (CoRR, 2025)

Continually Evolved Multimodal Foundation Models for Cancer Prognosis. - Jie Peng 002; Shuang Zhou 012; Longwei Yang; Yiran Song; Mohan Zhang; Kaixiong Zhou; Feng Xie; Mingquan Lin; Rui Zhang 028; Tianlong Chen 001 (CoRR, 2025)

MMRAG: Multi-Mode Retrieval-Augmented Generation with Large Language Models for Biomedical In-Context Learning. - Zaifu Zhan; Jun Wang; Shuang Zhou 012; Jiawen Deng; Rui Zhang 028 (CoRR, 2025)

External Large Foundation Model: How to Efficiently Serve Trillions of Parameters for Online Ads Recommendation. - Mingfu Liang; Xi Liu; Rong Jin 001; Boyang Liu; Qiuling Suo; Qinghai Zhou; Song Zhou; Laming Chen; Hua Zheng; Zhiyuan Li; Shali Jiang 003; Jiyan Yang; et al. (CoRR, 2025)

An evaluation of DeepSeek Models in Biomedical Natural Language Processing. - Zaifu Zhan; Shuang Zhou 012; Huixue Zhou; Jiawen Deng; Yu Hou; Jeremy Yeung; Rui Zhang 028 (CoRR, 2025)

EPEE: Towards Efficient and Effective Foundation Models in Biomedicine. - Zaifu Zhan; Shuang Zhou 012; Huixue Zhou; Zirui Liu 001; Rui Zhang 028 (CoRR, 2025)

Safety Aware Task Planning via Large Language Models in Robotics. - Azal Ahmad Khan; Michael Andrev; Muhammad Ali Murtaza; Sergio Aguilera; Rui Zhang 028; Jie Ding 002; Seth Hutchinson 001; Ali Anwar 001 (CoRR, 2025)

Retrieval-augmented in-context learning for multimodal large language models in disease classification. - Zaifu Zhan; Shuang Zhou 012; Xiaoshan Zhou; Yongkang Xiao; Jun Wang; Jiawen Deng; He Zhu; Yu Hou; Rui Zhang 028 (CoRR, 2025)

Uncertainty-Aware Large Language Models for Explainable Disease Diagnosis. - Shuang Zhou 012; Jiashuo Wang; Zidu Xu; Song Wang 013; David Brauer; Lindsay Welton; Jacob Cogan; Yuen-Hei Chung; Lei Tian; Zaifu Zhan; Yu Hou; Mingquan Lin; et al. (CoRR, 2025)

An Outlook on the Opportunities and Challenges of Multi-Agent AI Systems. - Fangqiao Tian; An Luo; Jin Du; Xun Xian; Robert Specht; Ganghua Wang; Xuan Bi; Jiawei Zhou; Jayanth Srinivasa; Ashish Kundu; Charles Fleming; Rui Zhang 028; et al. (CoRR, 2025)

Automating Expert-Level Medical Reasoning Evaluation of Large Language Models. - Shuang Zhou 012; Wenya Xie; Jiaxi Li; Zaifu Zhan; Meijia Song; Han Yang; Cheyenna Espinoza; Lindsay Welton; Xinnie Mai; Yanwei Jin; Zidu Xu; Yuen-Hei Chung; et al. (CoRR, 2025)

Data-Efficient Biomedical In-Context Learning: A Diversity-Enhanced Submodular Perspective. - Jun Wang; Zaifu Zhan; Qixin Zhang; Mingquan Lin; Meijia Song; Rui Zhang 028 (CoRR, 2025)