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ORCIDHua Xu 0001
Person information
- affiliation: University of Texas Health Science Center at Houston, School of Biomedical Informatics, TX, USA
- affiliation (former): Vanderbilt University, School of Medicine, Department of Biomedical Informatics, Nashville, TN, USA
Other persons with the same name
- Hua Xu — disambiguation page
- Hua Xu 0002
![[0000-0001-5478-6879]](https://dblp.org/img/orcid-mark.12x12.png "0000-0001-5478-6879")
— The University of Tsukuba, Graduate School of Business Sciences, Japan (and 1 more) - Hua Xu 0003 — Tsinghua University, Department of Computer Science and Technology, Beijing, China
- Hua Xu 0004 (aka: Hua Xue 0001) — Nanjing University of Aeronautics and Astronautics, Center for More Electric Aircraft Power System (CMEAPS), China
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2020 – today
- 2024
[j142]Huixue Zhou, Robin Austin, Sheng-Chieh Lu, Greg M. Silverman, Yuqi Zhou, Halil Kilicoglu, Hua Xu, Rui Zhang:
Complementary and Integrative Health Information in the literature: its lexicon and named entity recognition. J. Am. Medical Informatics Assoc. 31(2): 426-434 (2024)- [j141]Jiayi Tong, Chongliang Luo, Yifei Sun, Rui Duan, M. Elle Saine, Lifeng Lin, Yifan Peng, Yiwen Lu, Anchita Batra, Anni Pan, Olivia Wang, Ruowang Li, Arielle Marks-Anglin, Yuchen Yang, Xu Zuo, Yulun Liu, Jiang Bian, Stephen E. Kimmel, Keith Hamilton, Adam Cuker, Rebecca A. Hubbard, Hua Xu, Yong Chen:
Confidence score: a data-driven measure for inclusive systematic reviews considering unpublished preprints. J. Am. Medical Informatics Assoc. 31(4): 809-819 (2024) - [j140]Gongbo Zhang, Yiliang Zhou, Yan Hu, Hua Xu, Chunhua Weng, Yifan Peng:
A span-based model for extracting overlapping PICO entities from randomized controlled trial publications. J. Am. Medical Informatics Assoc. 31(5): 1163-1171 (2024) - [j139]Yan Hu, Qingyu Chen, Jingcheng Du, Xueqing Peng, Vipina Kuttichi Keloth, Xu Zuo, Yujia Zhou, Zehan Li, Xiaoqian Jiang, Zhiyong Lu, Kirk Roberts, Hua Xu:
Improving large language models for clinical named entity recognition via prompt engineering. J. Am. Medical Informatics Assoc. 31(9): 1812-1820 (2024) - [j138]Zhao Li, Qiang Wei, Liang-Chin Huang, Jianfu Li, Yan Hu, Yao-Shun Chuang, Jianping He, Avisha Das, Vipina Kuttichi Keloth, Yuntao Yang, Chiamaka S. Diala, Kirk E. Roberts, Cui Tao, Xiaoqian Jiang, W. Jim Zheng, Hua Xu:
Ensemble pretrained language models to extract biomedical knowledge from literature. J. Am. Medical Informatics Assoc. 31(9): 1904-1911 (2024) - [j137]Satya S. Sahoo, Joseph M. Plasek, Hua Xu, Özlem Uzuner, Trevor Cohen, Meliha Yetisgen, Hongfang Liu, Stéphane M. Meystre, Yanshan Wang:
Large language models for biomedicine: foundations, opportunities, challenges, and best practices. J. Am. Medical Informatics Assoc. 31(9): 2114-2124 (2024) - [j136]Yu Huang, Jingchuan Guo, Wei-Han William Chen, Hsin-Yueh Lin, Huilin Tang, Fei Wang, Hua Xu, Jiang Bian:
A scoping review of fair machine learning techniques when using real-world data. J. Biomed. Informatics 151: 104622 (2024) - [j135]Yiming Li, Wei Tao, Zehan Li, Zenan Sun, Fang Li, Susan H. Fenton, Hua Xu, Cui Tao:
Artificial intelligence-powered pharmacovigilance: A review of machine and deep learning in clinical text-based adverse drug event detection for benchmark datasets. J. Biomed. Informatics 152: 104621 (2024) - [j134]Sunyang Fu, Heling Jia, Maria Vassilaki, Vipina Kuttichi Keloth, Yifang Dang, Yujia Zhou, Muskan Garg, Ronald C. Petersen, Jennifer St Sauver, Sungrim Moon, Liwei Wang, Andrew Wen, Fang Li, Hua Xu, Cui Tao, Jungwei Fan, Hongfang Liu, Sunghwan Sohn:
FedFSA: Hybrid and federated framework for functional status ascertainment across institutions. J. Biomed. Informatics 152: 104623 (2024) - [j133]Zhao Li, Lan Lan, Yujia Zhou, Ruoxing Li, Kenneth D. Chavin, Hua Xu, Liang Li, David J. H. Shih, W. Jim Zheng:
Developing deep learning-based strategies to predict the risk of hepatocellular carcinoma among patients with nonalcoholic fatty liver disease from electronic health records. J. Biomed. Informatics 152: 104626 (2024) - [j132]Yiwen Lu, Jiayi Tong, Jessica Chubak, Thomas Lumley, Rebecca A. Hubbard, Hua Xu, Yong Chen:
Leveraging error-prone algorithm-derived phenotypes: Enhancing association studies for risk factors in EHR data. J. Biomed. Informatics 157: 104690 (2024) - [j131]Jiang Bian, Yifan Peng, Eneida A. Mendonça, Imon Banerjee, Hua Xu, Hong Sun, Ye Ye, Casey Overby Taylor, Anália Maria Garcia Lourenço, Alejandro Rodríguez González, Elena Tutubalina:
Call for papers: Special issue on biomedical multimodal large language models - novel approaches and applications. J. Biomed. Informatics 157: 104703 (2024) - [j130]Jianping He, Fang Li, Jianfu Li, Xinyue Hu, Yi Nian, Yang Xiang, Jingqi Wang, Qiang Wei, Yiming Li, Hua Xu, Cui Tao:
Prompt Tuning in Biomedical Relation Extraction. J. Heal. Informatics Res. 8(2): 206-224 (2024) - [j129]Cathy Shyr, Yan Hu, Lisa Bastarache, Alex Cheng, Rizwan Hamid, Paul A. Harris, Hua Xu:
Identifying and Extracting Rare Diseases and Their Phenotypes with Large Language Models. J. Heal. Informatics Res. 8(2): 438-461 (2024) - [i23]Gongbo Zhang, Yiliang Zhou, Yan Hu, Hua Xu, Chunhua Weng, Yifan Peng:
A Span-based Model for Extracting Overlapping PICO Entities from RCT Publications. CoRR abs/2401.06791 (2024) - [i22]Qianqian Xie, Qingyu Chen, Aokun Chen, Cheng Peng, Yan Hu, Fongci Lin, Xueqing Peng, Jimin Huang, Jeffrey Zhang, Vipina Kuttichi Keloth, Xingyu Zhou, Huan He, Lucila Ohno-Machido, Yonghui Wu, Hua Xu, Jiang Bian:
Me LLaMA: Foundation Large Language Models for Medical Applications. CoRR abs/2402.12749 (2024) - [i21]Yiming Li, Xueqing Peng, Jianfu Li, Xu Zuo, Suyuan Peng, Donghong Pei, Cui Tao, Hua Xu, Na Hong:
Relation Extraction Using Large Language Models: A Case Study on Acupuncture Point Locations. CoRR abs/2404.05415 (2024) - [i20]Mingchen Li, Halil Kilicoglu, Hua Xu, Rui Zhang:
BiomedRAG: A Retrieval Augmented Large Language Model for Biomedicine. CoRR abs/2405.00465 (2024) - [i19]Hanlei Zhang, Hua Xu, Fei Long, Xin Wang, Kai Gao:
Unsupervised Multimodal Clustering for Semantics Discovery in Multimodal Utterances. CoRR abs/2405.12775 (2024) - [i18]Mingchen Li, Anne H. Blaes, Steven Johnson, Hongfang Liu, Hua Xu, Rui Zhang:
CancerLLM: A Large Language Model in Cancer Domain. CoRR abs/2406.10459 (2024) - [i17]Yu Yin, Hyunjae Kim, Xiao Xiao, Chih-Hsuan Wei, Jaewoo Kang, Zhiyong Lu, Hua Xu, Meng Fang, Qingyu Chen:
Augmenting Biomedical Named Entity Recognition with General-domain Resources. CoRR abs/2406.10671 (2024) - [i16]Tianyu Liu, Yijia Xiao, Xiao Luo, Hua Xu, W. Jim Zheng, Hongyu Zhao:
Geneverse: A collection of Open-source Multimodal Large Language Models for Genomic and Proteomic Research. CoRR abs/2406.15534 (2024) - [i15]Yiming Li, Deepthi Viswaroopan, William He, Jianfu Li, Xu Zuo, Hua Xu, Cui Tao:
Improving Entity Recognition Using Ensembles of Deep Learning and Fine-tuned Large Language Models: A Case Study on Adverse Event Extraction from Multiple Sources. CoRR abs/2406.18049 (2024) - [i14]Rachael Fleurence, Jiang Bian, Xiaoyan Wang, Hua Xu, Dalia Dawoud, Mitch Higashi, Jagpreet Chhatwal:
Generative AI for Health Technology Assessment: Opportunities, Challenges, and Policy Considerations. CoRR abs/2407.11054 (2024) - 2023
- [j128]Yan Hu, Vipina Kuttichi Keloth, Kalpana Raja, Yong Chen, Hua Xu:
Towards precise PICO extraction from abstracts of randomized controlled trials using a section-specific learning approach. Bioinform. 39(9) (2023) - [j127]Zhaoyi Chen, Hansi Zhang, Xi Yang, Songzi Wu, Xing He, Jie Xu, Jingchuan Guo, Mattia Prosperi, Fei Wang, Hua Xu, Yong Chen, Hui Hu, Steven DeKosky, Matthew Farrer, Yi Guo, Yonghui Wu, Jiang Bian:
Assess the documentation of cognitive tests and biomarkers in electronic health records via natural language processing for Alzheimer's disease and related dementias. Int. J. Medical Informatics 170: 104973 (2023) - [j126]Tsung-Ting Kuo, Anh Pham, Maxim E. Edelson, Jihoon Kim, Jason Chan, Yash Gupta, Lucila Ohno-Machado, David M. Anderson, Chandrasekar Balacha, Tyler Bath, Sally L. Baxter, Andrea Becker-Pennrich, Douglas S. Bell, Elmer V. Bernstam, Ngan Chau, Michele E. Day, Jason N. Doctor, Scott L. DuVall, Robert El-Kareh, Renato Florian, Robert W. Follett, Benjamin P. Geisler, Alessandro Ghigi, Assaf Gottlieb, Ludwig Christian G. Hinske, Zhaoxian Hu, Diana Ir, Xiaoqian Jiang, Katherine K. Kim, Tara K. Knight, Jejo D. Koola, Nelson Lee, Ulrich Mansmann, Michael E. Matheny, Daniella Meeker, Zongyang Mou, Larissa Neumann, Nghia H. Nguyen, Nick Anderson, Eunice Park, Paulina Paul, Mark J. Pletcher, Kai W. Post, Clemens Rieder, Clemens Scherer, Lisa M. Schilling, Andrey Soares, Spencer L. SooHoo, Ekin Soysal, Steven Covington, Brian Tep, Brian Toy, Baocheng Wang, Zhen R. Wu, Hua Xu, Yong K. Choi, Kai Zheng, Yujia Zhou, Rachel A Zucker:
Blockchain-enabled immutable, distributed, and highly available clinical research activity logging system for federated COVID-19 data analysis from multiple institutions. J. Am. Medical Informatics Assoc. 30(6): 1167-1178 (2023) - [j125]Yifang Dang, Fang Li, Xinyue Hu, Vipina Kuttichi Keloth, Meng Zhang, Sunyang Fu, Muhammad F. Amith, J. Wilfred Fan, Jingcheng Du, Evan Yu, Hongfang Liu, Xiaoqian Jiang, Hua Xu, Cui Tao:
Systematic design and data-driven evaluation of social determinants of health ontology (SDoHO). J. Am. Medical Informatics Assoc. 30(9): 1465-1473 (2023) - [j124]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:
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. 30(12): 2036-2040 (2023) - [j123]Lucila Ohno-Machado, Xiaoqian Jiang, Tsung-Ting Kuo, Shiqiang Tao, Luyao Chen, Pritham Ram, Guo-Qiang Zhang, Hua Xu:
A hierarchical strategy to minimize privacy risk when linking "De-identified" data in biomedical research consortia. J. Biomed. Informatics 139: 104322 (2023) - [j122]Vipina Kuttichi Keloth, Juan M. Banda, Michael J. Gurley, Paul M. Heider, Georgina Kennedy, Hongfang Liu, Feifan Liu, Timothy A. 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:
Representing and utilizing clinical textual data for real world studies: An OHDSI approach. J. Biomed. Informatics 142: 104343 (2023) - [j121]Yan Hu, Yong Chen, Hua Xu:
Towards More Generalizable and Accurate Sentence Classification in Medical Abstracts with Less Data. J. Heal. Informatics Res. 7(4): 542-556 (2023) - [c148]Omer Anjum, Luyao Chen, Ryan Denlinger, Ejaz Anam, Dongsheng Yuan, Connie Wooldridge, Martin J. Citardi, Jiajie Zhang, Hua Xu, Xiaoqian Jiang:
FinFax: Fast Interpretation of Fax with NLP. BCB 2023: 73:1-73:2 - [c147]Yiming Li, Xueqing Peng, Jianfu Li, Suyuan Peng, Donghong Pei, Cui Tao, Hua Xu, Na Hong:
Development of a Natural Language Processing Tool to Extract Acupuncture Point Location Terms. ICHI 2023: 344-351 - [c146]Zehan Li, Iqra Ameer, Yan Hu, Ahmed Abdelhameed, Cui Tao, Salih Selek, Hua Xu:
Suicide Tendency Prediction from Psychiatric Notes Using Transformer Models. ICHI 2023: 481-483 - [c145]Yongkang Xiao, Yu Hou, Huixue Zhou, Gayo Diallo, Marcelo Fiszman, Julian Wolfson, Halil Kilicoglu, You Chen, Hua Xu, William G. Mantyh, Rui Zhang:
Repurposing Drugs for Alzheimer's Diseases through Link Prediction on Biomedical Literature. ICHI 2023: 750-752 - [c144]Avisha Das, Zhao Li, Qiang Wei, Jianfu Li, Liang-Chin Huang, Yan Hu, Rongbin Li, Wenjin Jim Zheng, Hua Xu:
Extracting Drug-Protein Relation from Literature Using Ensembles of Biomedical Transformers. MedInfo 2023: 639-643 - [i13]Yan Hu, Iqra Ameer, Xu Zuo, Xueqing Peng, Yujia Zhou, Zehan Li, Yiming Li, Jianfu Li, Xiaoqian Jiang, Hua Xu:
Zero-shot Clinical Entity Recognition using ChatGPT. CoRR abs/2303.16416 (2023) - [i12]Qingyu Chen, Jingcheng Du, Yan Hu, Vipina Kuttichi Keloth, Xueqing Peng, Kalpana Raja, Rui Zhang, Zhiyong Lu, Hua Xu:
Large language models in biomedical natural language processing: benchmarks, baselines, and recommendations. CoRR abs/2305.16326 (2023) - [i11]Rui Yang, Qingcheng Zeng, Keen You, Yujie Qiao, Lucas Huang, Chiachun Hsieh, Benjamin Rosand, Jeremy Goldwasser, Amisha D. Dave, Tiarnan D. L. Keenan, Emily Y. Chew, Dragomir Radev, Zhiyong Lu, Hua Xu, Qingyu Chen, Irene Li:
MedGen: A Python Natural Language Processing Toolkit for Medical Text Processing. CoRR abs/2311.16588 (2023) - 2022
- [j120]Yilu Fang, Betina Ross S. Idnay, Yingcheng Sun, Hao Liu, Zhehuan Chen, Karen Marder, Hua Xu, Rebecca Schnall, Chunhua Weng:
Combining human and machine intelligence for clinical trial eligibility querying. J. Am. Medical Informatics Assoc. 29(7): 1161-1171 (2022) - [j119]Hua Xu, David L. Buckeridge, Fei Wang, Peter Tarczy-Hornoch:
Novel informatics approaches to COVID-19 Research: From methods to applications. J. Biomed. Informatics 129: 104028 (2022) - [j118]Dalton Schutte, Jake Vasilakes, Anusha Bompelli, Yuqi Zhou, Marcelo Fiszman, Hua Xu, Halil Kilicoglu, Jeffrey R. Bishop, Terrence Adam, Rui Zhang:
Discovering novel drug-supplement interactions using SuppKG generated from the biomedical literature. J. Biomed. Informatics 131: 104120 (2022) - [j117]Hua Xu, Ziqi Yuan, Kang Zhao, Yunfeng Xu, Jiyun Zou, Kai Gao:
GAR-Net: A Graph Attention Reasoning Network for conversation understanding. Knowl. Based Syst. 240: 108055 (2022) - [j116]Jianfu Li, Qiang Wei, Omid Ghiasvand, Miao Chen, Victor S. Lobanov, Chunhua Weng, Hua Xu:
A comparative study of pre-trained language models for named entity recognition in clinical trial eligibility criteria from multiple corpora. BMC Medical Informatics Decis. Mak. 22(3): 235 (2022) - [j115]Andrea H. Ramirez, Lina M. Sulieman, David J. Schlueter, Alese E. Halvorson, Jun Qian, Francis Ratsimbazafy, Roxana Loperena-Cortes, Kelsey R. Mayo, Melissa A. Basford, Nicole Deflaux, Karthik Muthuraman, Karthik Natarajan, Abel N. Kho, Hua Xu, Consuelo H. Wilkins, Hoda Anton-Culver, Eric Boerwinkle, Mine Cicek, Cheryl R. Clark, Elizabeth Cohn, Lucila Ohno-Machado, Sheri D. Schully, Brian K. Ahmedani, Maria Argos, Robert M. Cronin, Christopher J. O'Donnell, Mona Fouad, David B. Goldstein, Philip Greenland, Scott J. Hebbring, Elizabeth W. Karlson, Parinda Khatri, Bruce Korf, Jordan W. Smoller, Stephen Sodeke, John Wilbanks, Justin Hentges, Stephen Mockrin, Christopher Lunt, Stephanie A. Devaney, Kelly Gebo, Joshua C. Denny, Robert J. Carroll, David Glazer, Paul A. Harris, George Hripcsak, Anthony A. Philippakis, Dan M. Roden:
The All of Us Research Program: Data quality, utility, and diversity. Patterns 3(8): 100570 (2022) - [c143]Tsung-Ting Kuo, Xiaoqian Jiang, Hua Xu, Li Xiong, Lucila Ohno-Machado:
Existing and emerging privacy challenges and solutions for federated data coordination. AMIA 2022 - [c142]Yiming Li, Qiang Wei, Yujia Zhou, Hua Xu:
Fast Textual Corpus Retrieval from Electronic Health Records using PDF Parser and TxtSplit Tools. AMIA 2022 - [c141]Maryamsadat Mohtashamian, Ran Hu, Rashmie Abeysinghe, Xubing Hao, Hua Xu, Licong Cui:
Automated Identification of Missing IS-A Relations in the Human Phenotype Ontology. AMIA 2022 - [c140]Qiang Wei, Xu Zuo, Omer Anjum, Yan Hu, Ryan Denlinger, Elmer V. Bernstam, Martin J. Citardi, Hua Xu:
ClinicalLayoutLM: A Pre-trained Multi-modal Model for Understanding Scanned Document in Electronic Health Records. IEEE Big Data 2022: 2821-2827 - [c139]Avisha Das, Salih Selek, Alia R. Warner, Xu Zuo, Yan Hu, Vipina Kuttichi Keloth, Jianfu Li, W. Jim Zheng, Hua Xu:
Conversational Bots for Psychotherapy: A Study of Generative Transformer Models Using Domain-specific Dialogues. BioNLP@ACL 2022: 285-297 - [c138]Shiqiang Tao, Wei-Chun Chou, Jianfu Li, Jingcheng Du, Pritham Ram, Rashmie Abeysinghe, Hua Xu, Xiaoqian Jiang, Peter W. Rose, Lucila Ohno-Machado, Guo-Qiang Zhang:
IMI-CDE: an interactive interface for collaborative mapping of study variables to common data elements. ICHI 2022: 465-468 - [c137]Liwei Wang, Sunyang Fu, Andrew Wen, Xiaoyang Ruan, Huan He, Sijia Liu, Sungrim Moon, Michelle Mai, Irbaz Bin Riaz, Nan Wang, Ping Yang, Hua Xu, Jeremy L. Warner, Hongfang Liu:
Evaluation of mCODE Coverage in EHR: a Scoping Review of Cancer Natural Language Processing. ICHI 2022: 517-518 - [c136]Yan Hu, Yong Chen, Hua Xu:
Improving Sentence Classification in Abstracts of Randomized Controlled Trial using Prompt Learning. ICHI 2022: 606-607 - [c135]Jianping He, Fang Li, Xinyue Hu, Jianfu Li, Yi Nian, Jingqi Wang, Yang Xiang, Qiang Wei, Hua Xu, Cui Tao:
Chemical-Protein Relation Extraction with Pre-trained Prompt Tuning. ICHI 2022: 608-609 - [i10]Yihe Liu, Ziqi Yuan, Huisheng Mao, Zhiyun Liang, Wanqiuyue Yang, Yuanzhe Qiu, Tie Cheng, Xiaoteng Li, Hua Xu, Kai Gao:
Make Acoustic and Visual Cues Matter: CH-SIMS v2.0 Dataset and AV-Mixup Consistent Module. CoRR abs/2209.02604 (2022) - [i9]Yifang Dang, Fang Li, Xinyue Hu, Vipina Kuttichi Keloth, Meng Zhang, Sunyang Fu, Jingcheng Du, J. Wilfred Fan, Muhammad F. Amith, Evan Yu, Hongfang Liu, Xiaoqian Jiang, Hua Xu, Cui Tao:
Systematic Design and Evaluation of Social Determinants of Health Ontology (SDoHO). CoRR abs/2212.01941 (2022) - 2021
- [j114]Xu Zuo, Yong Chen, Lucila Ohno-Machado, Hua Xu:
How do we share data in COVID-19 research? A systematic review of COVID-19 datasets in PubMed Central Articles. Briefings Bioinform. 22(2): 800-811 (2021) - [j113]Jingqi Wang, Yuankai Ren, Zhi Zhang, Hua Xu, Yaoyun Zhang:
From Tokenization to Self-Supervision: Building a High-Performance Information Extraction System for Chemical Reactions in Patents. Frontiers Res. Metrics Anal. 6: 691105 (2021) - [j112]Jingqi Wang, Noor Abu-El-Rub, Josh Gray, Huy Anh Pham, Yujia Zhou, Frank J. Manion, Mei Liu, Xing Song, Hua Xu, Masoud Rouhizadeh, Yaoyun Zhang:
COVID-19 SignSym: a fast adaptation of a general clinical NLP tool to identify and normalize COVID-19 signs and symptoms to OMOP common data model. J. Am. Medical Informatics Assoc. 28(6): 1275-1283 (2021) - [j111]Jingcheng Du, Yang Xiang, Madhuri Sankaranarayanapillai, Meng Zhang, Jingqi Wang, Yuqi Si, Huy Anh Pham, Hua Xu, Yong Chen, Cui Tao:
Extracting postmarketing adverse events from safety reports in the vaccine adverse event reporting system (VAERS) using deep learning. J. Am. Medical Informatics Assoc. 28(7): 1393-1400 (2021) - [j110]Jihoon Kim, Larissa Neumann, Paulina Paul, Michele E. Day, Michael Aratow, Douglas S. Bell, Jason N. Doctor, Ludwig Christian G. Hinske, Xiaoqian Jiang, Katherine K. Kim, Michael E. Matheny, Daniella Meeker, Mark J. Pletcher, Lisa M. Schilling, Spencer L. SooHoo, Hua Xu, Kai Zheng, Lucila Ohno-Machado:
Privacy-protecting, reliable response data discovery using COVID-19 patient observations. J. Am. Medical Informatics Assoc. 28(8): 1765-1776 (2021) - [j109]Yi Guo, Yahan Zhang, Tianchen Lyu, Mattia Prosperi, Fei Wang, Hua Xu, Jiang Bian:
The application of artificial intelligence and data integration in COVID-19 studies: a scoping review. J. Am. Medical Informatics Assoc. 28(9): 2050-2067 (2021) - [j108]Jianfu Li, Yujia Zhou, Xiaoqian Jiang, Karthik Natarajan, Serguei V. S. Pakhomov, Hongfang Liu, Hua Xu:
Are synthetic clinical notes useful for real natural language processing tasks: A case study on clinical entity recognition. J. Am. Medical Informatics Assoc. 28(10): 2193-2201 (2021) - [j107]Kang Zhao, Hua Xu, Yue Cheng, Xiaoteng Li, Kai Gao:
Representation iterative fusion based on heterogeneous graph neural network for joint entity and relation extraction. Knowl. Based Syst. 219: 106888 (2021) - [c134]Hanlei Zhang, Xiaoteng Li, Hua Xu, Panpan Zhang, Kang Zhao, Kai Gao:
TEXTOIR: An Integrated and Visualized Platform for Text Open Intent Recognition. ACL (demo) 2021: 167-174 - [c133]Laila Rasmy, Bijun S. Kannadath, Masayuki Nigo, Ziqian Xie, Bingyu Mao, Khush A. Patel, Yujia Zhou, Xiao Dong, Hua Xu, Degui Zhi:
Generalizable Gated Recurrent Neural Network based model to predict COVID-19 patient outcomes on admission. AMIA 2021 - [c132]Laila Rasmy, Masayuki Nigo, Bijun S. Kannadath, Ziqian Xie, Bingyu Mao, Khush A. Patel, Wanheng Zhang, Yujia Zhou, Angela Ross, Hua Xu, Degui Zhi:
CovRNN: predicting outcomes of COVID-19 patients on admission using their electronic health records with minimal data processing. AMIA 2021 - [c131]Hong Guan, Jianfu Li, Hua Xu, Murthy V. Devarakonda:
Robustly Pre-Trained Neural Model for Direct Temporal Relation Extraction. ICHI 2021: 501-502 - [c130]Jianfu Li, Qiang Wei, Omid Ghiasvand, Miao Chen, Victor S. Lobanov, Chunhua Weng, Hua Xu:
Study of Pre-trained Language Models for Named Entity Recognition in Clinical Trial Eligibility Criteria from Multiple Corpora. ICHI 2021: 511-512 - [i8]Dalton Schutte, Jake Vasilakes, Anusha Bompelli, Yuqi Zhou, Marcelo Fiszman, Hua Xu, Halil Kilicoglu, Jeffrey R. Bishop, Terrence Adam, Rui Zhang:
Discovering novel drug-supplement interactions using a dietary supplements knowledge graph generated from the biomedical literature. CoRR abs/2106.12741 (2021) - [i7]Greg M. Silverman, Raymond L. Finzel, Michael V. Heinz, Jake Vasilakes, Jacob C. Solinsky, Reed McEwan, Benjamin C. Knoll, Christopher J. Tignanelli, Hongfang Liu, Hua Xu, Xiaoqian Jiang, Genevieve B. Melton, Serguei V. S. Pakhomov:
An Empirical Study of UMLS Concept Extraction from Clinical Notes using Boolean Combination Ensembles. CoRR abs/2108.02255 (2021) - [i6]Laila Rasmy, Jie Zhu, Zhiheng Li, Xin Hao, Hong Thoai Tran, Yujia Zhou, Firat Tiryaki, Yang Xiang, Hua Xu, Degui Zhi:
Simple Recurrent Neural Networks is all we need for clinical events predictions using EHR data. CoRR abs/2110.00998 (2021) - [i5]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:
An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). CoRR abs/2110.10780 (2021) - 2020
- [j106]Qiang Wei, Yaoyun Zhang, Muhammad Amith, Rebecca Lin, Jenay Lapeyrolerie, Cui Tao, Hua Xu:
Recognizing software names in biomedical literature using machine learning. Health Informatics J. 26(1) (2020) - [j105]Fang Li, Guozheng Rao, Jingcheng Du, Yang Xiang, Yaoyun Zhang, Salih Selek, Jane Elizabeth Hamilton, Hua Xu, Cui Tao:
Ontological representation-oriented term normalization and standardization of the Research Domain Criteria. Health Informatics J. 26(2): 726-737 (2020) - [j104]Jianhong Luo, Jingcheng Du, Cui Tao, Hua Xu, Yaoyun Zhang:
Exploring temporal suicidal behavior patterns on social media: Insight from Twitter analytics. Health Informatics J. 26(2): 738-752 (2020) - [j103]Qiang Wei, Zongcheng Ji, Zhiheng Li, Jingcheng Du, Jingqi Wang, Jun Xu, Yang Xiang, Firat Tiryaki, Stephen Wu, Yaoyun Zhang, Cui Tao, Hua Xu:
A study of deep learning approaches for medication and adverse drug event extraction from clinical text. J. Am. Medical Informatics Assoc. 27(1): 13-21 (2020) - [j102]Rui Duan, Mary Regina Boland, Zixuan Liu, Yue Liu, Howard H. Chang, Hua Xu, Haitao Chu, Christopher H. Schmid, Christopher B. Forrest, John H. Holmes, Martijn J. Schuemie, Jesse A. Berlin, Jason H. Moore, Yong Chen:
Learning from electronic health records across multiple sites: A communication-efficient and privacy-preserving distributed algorithm. J. Am. Medical Informatics Assoc. 27(3): 376-385 (2020) - [j101]Stephen Wu, Kirk Roberts, Surabhi Datta, Jingcheng Du, Zongcheng Ji, Yuqi Si, Sarvesh Soni, Qiong Wang, Qiang Wei, Yang Xiang, Bo Zhao, Hua Xu:
Deep learning in clinical natural language processing: a methodical review. J. Am. Medical Informatics Assoc. 27(3): 457-470 (2020) - [j100]Rui Duan, Chongliang Luo, Martijn J. Schuemie, Jiayi Tong, C. Jason Liang, Howard H. Chang, Mary Regina Boland, Jiang Bian, Hua Xu, John H. Holmes, Christopher B. Forrest, Sally C. Morton, Jesse A. Berlin, Jason H. Moore, Kevin B. Mahoney, Yong Chen:
Learning from local to global: An efficient distributed algorithm for modeling time-to-event data. J. Am. Medical Informatics Assoc. 27(7): 1028-1036 (2020) - [j99]Fang Li, Jingcheng Du, Yongqun He, Hsing-yi Song, Mohcine Madkour, Guozheng Rao, Yang Xiang, Yi Luo, Henry W. Chen, Sijia Liu, Liwei Wang, Hongfang Liu, Hua Xu, Cui Tao:
Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events. J. Am. Medical Informatics Assoc. 27(7): 1046-1056 (2020) - [j98]Xiao Dong, Jianfu Li, Ekin Soysal, Jiang Bian, Scott L. DuVall, Elizabeth Hanchrow, Hongfang Liu, Kristine E. Lynch, Michael E. Matheny, Karthik Natarajan, Lucila Ohno-Machado, Serguei Pakhomov, Ruth Madeleine Reeves, Amy M. Sitapati, Swapna Abhyankar, Theresa Cullen, Jami Deckard, Xiaoqian Jiang, Robert Murphy, Hua Xu:
COVID-19 TestNorm: A tool to normalize COVID-19 testing names to LOINC codes. J. Am. Medical Informatics Assoc. 27(9): 1437-1442 (2020) - [j97]Laila Rasmy, Firat Tiryaki, Yujia Zhou, Yang Xiang, Cui Tao, Hua Xu, Degui Zhi:
Representation of EHR data for predictive modeling: a comparison between UMLS and other terminologies. J. Am. Medical Informatics Assoc. 27(10): 1593-1599 (2020) - [j96]Jean Louis Raisaro, Francesco Marino, Juan Ramón Troncoso-Pastoriza, Raphaelle Beau-Lejdstrom, Riccardo Bellazzi, Robert Murphy, Elmer V. Bernstam, Henry Wang, Mauro Bucalo, Yong Chen, Assaf Gottlieb, Arif Ozgun Harmanci, Miran Kim, Yejin Kim, Jeffrey G. Klann, Catherine Klersy, Bradley A. Malin, Marie Méan, Fabian Prasser, Luigia Scudeller, Ali Torkamani, Julien Vaucher, Mamta Puppala, Stephen T. C. Wong, Milana Frenkel-Morgenstern, Hua Xu, Baba Maiyaki Musa, Abdulrazaq G. Habib, Trevor Cohen, Adam B. Wilcox, Hamisu M. Salihu, Heidi Sofia, Xiaoqian Jiang, Jean-Pierre Hubaux:
SCOR: A secure international informatics infrastructure to investigate COVID-19. J. Am. Medical Informatics Assoc. 27(11): 1721-1726 (2020) - [j95]Qiong Wang, Zongcheng Ji, Jingqi Wang, Stephen Wu, Weiyan Lin, Wenzhen Li, Li Ke, Guohong Xiao, Qing Jiang, Hua Xu, Yi Zhou:
A study of entity-linking methods for normalizing Chinese diagnosis and procedure terms to ICD codes. J. Biomed. Informatics 105: 103418 (2020) - [j94]Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao:
Conversational ontology operator: patient-centric vaccine dialogue management engine for spoken conversational agents. BMC Medical Informatics Decis. Mak. 20-S(4): 259 (2020) - [c129]Hongfang Liu, Xiaoqian Jiang, Serguei V. S. Pakhomov, Chunhua Weng, Hua Xu:
The Open Health Natural Language Processing Collaboratory. AMIA 2020 - [c128]Yaoyun Zhang, Jingqi Wang, Hua Xu:
LANN: An integrated online annotation tool for information extraction. AMIA 2020 - [c127]Xu Zuo, Jianfu Li, Bo Zhao, Yujia Zhou, Xiao Dong, Jon D. Duke, Karthik Natarajan, George Hripcsak, Nigam Shah, Juan M. Banda, Ruth M. Reeves, Hua Xu:
Normalizing Clinical Document Titles to LOINC Document Ontology: an Initial Study. AMIA 2020 - [c126]Jingqi Wang, William Christopher Mathews, Huy Anh Pham, Hua Xu, Yaoyun Zhang:
Opioid2FHIR: A system for extracting FHIR-compatible opioid prescriptions from clinical text. BIBM 2020: 1748-1751 - [c125]Xi Yang, Hanyuan Yang, Tianchen Lyu, Shuang Yang, Yi Guo, Jiang Bian, Hua Xu, Yonghui Wu:
A Natural Language Processing Tool to Extract Quantitative Smoking Status from Clinical Narratives. ICHI 2020: 1-2 - [c124]Qiang Wei, Yujia Zhou, Bo Zhao, Xinyue Hu, Qiaozhu Mei, Cui Tao, Hua Xu:
Named Entity Recognition from Table Headers in Randomized Controlled Trial Articles. ICHI 2020: 1-2 - [i4]Hong Guan, Jianfu Li, Hua Xu, Murthy V. Devarakonda:
Robustly Pre-trained Neural Model for Direct Temporal Relation Extraction. CoRR abs/2004.06216 (2020)
2010 – 2019
- 2019
- [j93]Yaoyun Zhang, Olivia R. Zhang, Rui Li, Aaron Flores, Salih Selek, Xiang Y. Zhang, Hua Xu:
Psychiatric stressor recognition from clinical notes to reveal association with suicide. Health Informatics J. 25(4) (2019) - [j92]Yuqi Si, Jingqi Wang, Hua Xu, Kirk E. Roberts:
Enhancing clinical concept extraction with contextual embeddings. J. Am. Medical Informatics Assoc. 26(11): 1297-1304 (2019) - [j91]Qiang Wei, Yukun Chen, Mandana Salimi, Joshua C. Denny, Qiaozhu Mei, Thomas A. Lasko, Qingxia Chen, Stephen Wu,