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ORCIDYonghui Wu 0001
Person information
- affiliation: University of Florida, Gainesville, FL, USA
Other persons with the same name
- Yonghui Wu — disambiguation page
- Yonghui Wu 0002
![[0000-0002-1889-647X]](https://dblp.dagstuhl.de/img/orcid-mark.12x12.png "0000-0002-1889-647X")
— Tongji University, Shanghai, China - Yonghui Wu 0003 — Institute of High Performance Computing, Singapore
- Yonghui Wu 0004 — Tongji University, Shanghai, China
- Yonghui Wu 0005 — Tongji University, Shanghai, China
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2020 – today
- 2025
[j40]Xinyao Jian, Dazheng Zhang, Zehao Yu, Hua Xu, Jiang Bian, Yonghui Wu, Jiayi Tong, Yong Chen:
Leveraging undecided cases in chart-reviewed phenotypes to enhance EHR-based association studies. J. Biomed. Informatics 166: 104839 (2025)- [j39]Qianqian Xie, Qingyu Chen, Aokun Chen, Cheng Peng, Yan Hu, Fongci Lin, Xueqing Peng, Jimin Huang, Jeffrey Zhang, Vipina Kuttichi Keloth, Xinyu Zhou, Lingfei Qian, Huan He, Dennis L. Shung, Lucila Ohno-Machado, Yonghui Wu, Hua Xu, Jiang Bian:
Medical foundation large language models for comprehensive text analysis and beyond. npj Digit. Medicine 8(1) (2025) - [c56]Scott A. Cohen, Ziyi Chen, Jiang Bian, Christina Boucher, Yonghui Wu, Mattia Prosperi:
Comparative Evaluation of Clinical Large Language Models and Machine Learning to Predict Antimicrobial Resistance in Hospital-Onset Sepsis. AIME (1) 2025: 65-76 - [c55]Amin Dada, Amanda Butler Contreras, Constantin Seibold, Osman Alperen Koras, Julius Keyl, Aokun Chen, Cheng Peng, Alexander Brehmer, Kaleb E. Smith, Jiang Bian, Yonghui Wu, Jens Kleesiek:
Improving Medical Visual Instruction Tuning with Labeled Datasets. MedAGI 2025: 87-97 - [i22]Ziyi Chen, Yiyang Liu, Mattia Prosperi, Krishna Vaddiparti, Robert L. Cook, Jiang Bian, Yi Guo, Yonghui Wu:
A Topic Modeling Analysis of Stigma Dimensions, Social, and Related Behavioral Circumstances in Clinical Notes Among Patients with HIV. CoRR abs/2506.09279 (2025) - [i21]Cheng Peng, Xinyu Dong, Mengxian Lyu, Daniel Paredes, Yaoyun Zhang, Yonghui Wu:
A Study of Large Language Models for Patient Information Extraction: Model Architecture, Fine-Tuning Strategy, and Multi-task Instruction Tuning. CoRR abs/2509.04753 (2025) - 2024
- [j38]Cheng Peng, Xi Yang, Aokun Chen, Zehao Yu, Kaleb E. Smith, Anthony B. Costa, Mona G. Flores, Jiang Bian, Yonghui Wu:
Generative large language models are all-purpose text analytics engines: text-to-text learning is all your need. J. Am. Medical Informatics Assoc. 31(9): 1892-1903 (2024) - [j37]Cheng Peng, Xi Yang, Kaleb E. Smith, Zehao Yu, Aokun Chen, Jiang Bian, Yonghui Wu:
Model tuning or prompt Tuning? a study of large language models for clinical concept and relation extraction. J. Biomed. Informatics 153: 104630 (2024) - [j36]Zehao Yu, Cheng Peng, Xi Yang, Chong Dang, Prakash Adekkanattu, Braja Gopal Patra, Yifan Peng, Jyotishman Pathak, Debbie L. Wilson, Ching-Yuan Chang, Wei-Hsuan Lo-Ciganic, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
Identifying social determinants of health from clinical narratives: A study of performance, documentation ratio, and potential bias. J. Biomed. Informatics 153: 104642 (2024) - [j35]Shuang Yang, Xi Yang, Tianchen Lyu, James L. Huang, Aokun Chen, Xing He, Dejana Braithwaite, Hiren J. Mehta, Yonghui Wu, Yi Guo, Jiang Bian:
Extracting Pulmonary Nodules and Nodule Characteristics from Radiology Reports of Lung Cancer Screening Patients Using Transformer Models. J. Heal. Informatics Res. 8(3): 463-477 (2024) - [j34]Prakash Adekkanattu, Al'ona Furmanchuk, Yonghui Wu, Aman Pathak, Braja Gopal Patra, Sarah Bost, Destinee Morrow, Grace Hsin-Min Wang, Yuyang Yang, Noah James Forrest, Yuan Luo, Theresa L. Walunas, Wei-Hsuan Lo-Ciganic, Walid Gelad, Jiang Bian, Yuhua Bao, Mark G. Weiner, David W. Oslin, Jyotishman Pathak:
Deep learning for identifying personal and family history of suicidal thoughts and behaviors from EHRs. npj Digit. Medicine 7(1) (2024) - [c54]Mengxian Lyu, Cheng Peng, Daniel Paredes, Ziyi Chen, Aokun Chen, Jiang Bian, Yonghui Wu:
UF-HOBI at "Discharge Me!": A Hybrid Solution for Discharge Summary Generation Through Prompt-based Tuning of GatorTronGPT Models. BioNLP@ACL 2024: 685-695 - [c53]Ahmad Idrissi-Yaghir, Amin Dada, Henning Schäfer, Kamyar Arzideh, Giulia Baldini, Jan Trienes, Max Hasin, Jeanette Bewersdorff, Cynthia S. Schmidt, Marie Bauer, Kaleb E. Smith, Jiang Bian, Yonghui Wu, Jörg Schlötterer, Torsten Zesch, Peter A. Horn, Christin Seifert, Felix Nensa, Jens Kleesiek, Christoph M. Friedrich:
Comprehensive Study on German Language Models for Clinical and Biomedical Text Understanding. LREC/COLING 2024: 3654-3665 - [c52]Aokun Chen, Daniel Paredes, Zehao Yu, Xiwei Lou, Roberta Brunson, Jamie N. Thomas, Kimberly A. Martinez, Robert J. Lucero, Tanja Magoc, Laurence M. Solberg, Urszula Alina Snigurska, Sarah E. Ser, Mattia Prosperi, Jiang Bian, Ragnhildur I. Bjarnadottir, Yonghui Wu:
Identifying Symptoms of Delirium from Clinical Narratives Using Natural Language Processing. ICHI 2024: 305-311 - [c51]Ragnhildur I. Bjarnadottir, Yonghui Wu, Urszula Alina Snigurska, Sarah E. Ser, Laurence M. Solberg, Kimberly A. Martinez, Summer Bolin, Shannon E. Dwarica, Elizabeth Dunn, Laurie J. D. Duckworth, Xiwei Lou, Daniel Paredes, Zehao Yu, Robert J. Lucero:
Unveiling Fall Risk Factors: Nurse-Driven Corpus Development for Natural Language Processing. Nursing Informatics 2024: 373-378 - [i20]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-Machado, Yonghui Wu, Hua Xu, Jiang Bian:
Me LLaMA: Foundation Large Language Models for Medical Applications. CoRR abs/2402.12749 (2024) - [i19]Aokun Chen, Qian Li, Yu Huang, Yongqiu Li, Yu-Neng Chuang, Xia Hu, Serena Guo, Yonghui Wu, Yi Guo, Jiang Bian:
Feasibility of Identifying Factors Related to Alzheimer's Disease and Related Dementia in Real-World Data. CoRR abs/2402.15515 (2024) - [i18]Ziyi Chen, Mengyuan Zhang, Mustafa Mohammed Ahmed, Yi Guo, Thomas J. George, Jiang Bian, Yonghui Wu:
Narrative Feature or Structured Feature? A Study of Large Language Models to Identify Cancer Patients at Risk of Heart Failure. CoRR abs/2403.11425 (2024) - [i17]Cheng Peng, Zehao Yu, Kaleb E. Smith, Wei-Hsuan Lo-Ciganic, Jiang Bian, Yonghui Wu:
Improving Generalizability of Extracting Social Determinants of Health Using Large Language Models through Prompt-tuning. CoRR abs/2403.12374 (2024) - [i16]Ahmad Idrissi-Yaghir, Amin Dada, Henning Schäfer, Kamyar Arzideh, Giulia Baldini, Jan Trienes, Max Hasin, Jeanette Bewersdorff, Cynthia S. Schmidt, Marie Bauer, Kaleb E. Smith, Jiang Bian, Yonghui Wu, Jörg Schlötterer, Torsten Zesch, Peter A. Horn, Christin Seifert, Felix Nensa, Jens Kleesiek, Christoph M. Friedrich:
Comprehensive Study on German Language Models for Clinical and Biomedical Text Understanding. CoRR abs/2404.05694 (2024) - [i15]Ricardo Loor-Torres, Yuqi Wu, Esteban Cabezas, Mariana Borras, David Toro-Tobon, Mayra Durán, Misk Al Zahidy, Maria Mateo Chavez, Cristian Soto Jacome, Jungwei W. Fan, Naykky M. Singh Ospina, Yonghui Wu, Juan P. Brito:
Use of natural language processing to extract and classify papillary thyroid cancer features from surgical pathology reports. CoRR abs/2406.00015 (2024) - [i14]Mengxian Lyu, Cheng Peng, Daniel Paredes, Ziyi Chen, Aokun Chen, Jiang Bian, Yonghui Wu:
UF-HOBI at "Discharge Me!": A Hybrid Solution for Discharge Summary Generation Through Prompt-based Tuning of GatorTronGPT Models. CoRR abs/2407.15359 (2024) - 2023
- [j33]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) - [j32]Siru Liu, Allison B. McCoy, Melinda C. Aldrich, Kim L. Sandler, Thomas J. Reese, Bryan D. Steitz, Jiang Bian, Yonghui Wu, Elise M. Russo, Adam Wright:
Leveraging natural language processing to identify eligible lung cancer screening patients with the electronic health record. Int. J. Medical Informatics 177: 105136 (2023) - [j31]Cheng Peng, Xi Yang, Zehao Yu, Jiang Bian, William R. Hogan, Yonghui Wu:
Clinical concept and relation extraction using prompt-based machine reading comprehension. J. Am. Medical Informatics Assoc. 30(9): 1486-1493 (2023) - [j30]Piaopiao Li, Tianchen Lyu, Khalid Alkhuzam, Eliot Spector, William T. Donahoo, Sarah Bost, Yonghui Wu, William R. Hogan, Mattia Prosperi, Desmond A. Schatz, Mark A Atkinson, Michael J. Haller, Elizabeth A. Shenkman, Yi Guo, Jiang Bian, Hui Shao:
The role of health system penetration rate in estimating the prevalence of type 1 diabetes in children and adolescents using electronic health records. J. Am. Medical Informatics Assoc. 31(1): 165-173 (2023) - [j29]Aokun Chen, Zehao Yu, Xi Yang, Yi Guo, Jiang Bian, Yonghui Wu:
Contextualized medication information extraction using Transformer-based deep learning architectures. J. Biomed. Informatics 142: 104370 (2023) - [j28]Cheng Peng, Xi Yang, Aokun Chen, Kaleb E. Smith, Nima M. Pournejatian, Anthony B. Costa, Cheryl Martin, Mona G. Flores, Ying Zhang, Tanja Magoc, Gloria P. Lipori, Duane A. Mitchell, Naykky Singh Ospina, Mustafa M. Ahmed, William R. Hogan, Elizabeth A. Shenkman, Yi Guo, Jiang Bian, Yonghui Wu:
A study of generative large language model for medical research and healthcare. npj Digit. Medicine 6 (2023) - [c50]Amin Dada, Aokun Chen, Cheng Peng, Kaleb E. Smith, Ahmad Idrissi-Yaghir, Constantin Seibold, Jianning Li, Lars Heiliger, Christoph M. Friedrich, Daniel Truhn, Jan Egger, Jiang Bian, Jens Kleesiek, Yonghui Wu:
On the Impact of Cross-Domain Data on German Language Models. EMNLP (Findings) 2023: 13801-13813 - [c49]Aokun Chen, Qian Li, Elizabeth Shenkman, Yonghui Wu, Yi Guo, Jiang Bian:
Exploring the Effect of Eligibility Criteria on AD Severity and Severe Adverse Event in Eligible Patients. ICHI 2023: 756-759 - [c48]Zheng Feng, Zhaoyi Chen, Yi Guo, Mattia Prosperi, Hiren J. Mehta, Dejana Braithwaite, Yonghui Wu, Jiang Bian:
Real-World Effectiveness of Lung Cancer Screening Using Deep Learning-Based Counterfactual Prediction. MedInfo 2023: 419-423 - [i13]Aokun Chen, Zehao Yu, Xi Yang, Yi Guo, Jiang Bian, Yonghui Wu:
Contextualized Medication Information Extraction Using Transformer-based Deep Learning Architectures. CoRR abs/2303.08259 (2023) - [i12]Cheng Peng, Xi Yang, Zehao Yu, Jiang Bian, William R. Hogan, Yonghui Wu:
Clinical Concept and Relation Extraction Using Prompt-based Machine Reading Comprehension. CoRR abs/2303.08262 (2023) - [i11]Aokun Chen, Daniel Paredes, Zehao Yu, Xiwei Lou, Roberta Brunson, Jamie N. Thomas, Kimberly A. Martinez, Robert J. Lucero, Tanja Magoc, Laurence M. Solberg, Urszula Alina Snigurska, Sarah E. Ser, Mattia Prosperi, Jiang Bian, Ragnhildur I. Bjarnadottir, Yonghui Wu:
Identifying Symptoms of Delirium from Clinical Narratives Using Natural Language Processing. CoRR abs/2304.00111 (2023) - [i10]Aman Pathak, Zehao Yu, Daniel Paredes, Elio Paul Monsour, Andrea Ortiz Rocha, Juan P. Brito, Naykky Singh Ospina, Yonghui Wu:
Extracting Thyroid Nodules Characteristics from Ultrasound Reports Using Transformer-based Natural Language Processing Methods. CoRR abs/2304.00115 (2023) - [i9]Cheng Peng, Xi Yang, Aokun Chen, Kaleb E. Smith, Nima M. Pournejatian, Anthony B. Costa, Cheryl Martin, Mona G. Flores, Ying Zhang, Tanja Magoc, Gloria P. Lipori, Duane A. Mitchell, Naykky Singh Ospina, Mustafa M. Ahmed, William R. Hogan, Elizabeth Shenkman, Yi Guo, Jiang Bian, Yonghui Wu:
A Study of Generative Large Language Model for Medical Research and Healthcare. CoRR abs/2305.13523 (2023) - [i8]Cheng Peng, Xi Yang, Kaleb E. Smith, Zehao Yu, Aokun Chen, Jiang Bian, Yonghui Wu:
Model Tuning or Prompt Tuning? A Study of Large Language Models for Clinical Concept and Relation Extraction. CoRR abs/2310.06239 (2023) - [i7]Amin Dada, Aokun Chen, Cheng Peng, Kaleb E. Smith, Ahmad Idrissi-Yaghir, Constantin Marc Seibold, Jianning Li, Lars Heiliger, Xi Yang, Christoph M. Friedrich, Daniel Truhn, Jan Egger, Jiang Bian, Jens Kleesiek, Yonghui Wu:
On the Impact of Cross-Domain Data on German Language Models. CoRR abs/2310.07321 (2023) - [i6]Cheng Peng, Xi Yang, Aokun Chen, Zehao Yu, Kaleb E. Smith, Anthony B. Costa, Mona G. Flores, Jiang Bian, Yonghui Wu:
Generative Large Language Models Are All-purpose Text Analytics Engines: Text-to-text Learning Is All Your Need. CoRR abs/2312.06099 (2023) - 2022
- [j27]Yunpeng Zhao, Xing He, Zheng Feng, Sarah Bost, Mattia Prosperi, Yonghui Wu, Yi Guo, Jiang Bian:
Biases in using social media data for public health surveillance: A scoping review. Int. J. Medical Informatics 164: 104804 (2022) - [j26]Zehao Yu, Xi Yang, Gianna L. Sweeting, Yinghan Ma, Skylar E. Stolte, Ruogu Fang, Yonghui Wu:
Identify diabetic retinopathy-related clinical concepts and their attributes using transformer-based natural language processing methods. BMC Medical Informatics Decis. Mak. 22-S(3): 255 (2022) - [j25]Xi Yang, Aokun Chen, Nima M. Pournejatian, Hoo Chang Shin, Kaleb E. Smith, Christopher Parisien, Colin Compas, Cheryl Martin, Anthony B. Costa, Mona G. Flores, Ying Zhang, Tanja Magoc, Christopher A. Harle, Gloria P. Lipori, Duane A. Mitchell, William R. Hogan, Elizabeth A. Shenkman, Jiang Bian, Yonghui Wu:
A large language model for electronic health records. npj Digit. Medicine 5 (2022) - [c47]Zehao Yu, Xi Yang, Yiqing Chen, Ruogu Fang, William R. Hogan, Yan Gong, Yonghui Wu:
Identify Cancer Patients at Risk for Heart Failure using Electronic Health Record and Genetic Data. ICHI 2022: 138-142 - [c46]Shuang Yang, Xi Yang, Tianchen Lyu, Xing He, Dejana Braithwaite, Hiren J. Mehta, Yi Guo, Yonghui Wu, Jiang Bian:
A Preliminary Study of Extracting Pulmonary Nodules and Nodule Characteristics from Radiology Reports Using Natural Language Processing. ICHI 2022: 618-619 - [i5]Xi Yang, Nima M. Pournejatian, Hoo Chang Shin, Kaleb E. Smith, Christopher Parisien, Colin Compas, Cheryl Martin, Mona G. Flores, Ying Zhang, Tanja Magoc, Christopher A. Harle, Gloria P. Lipori, Duane A. Mitchell, William R. Hogan, Elizabeth A. Shenkman, Jiang Bian, Yonghui Wu:
GatorTron: A Large Clinical Language Model to Unlock Patient Information from Unstructured Electronic Health Records. CoRR abs/2203.03540 (2022) - [i4]Zehao Yu, Xi Yang, Chong Dang, Prakash Adekkanattu, Braja Gopal Patra, Yifan Peng, Jyotishman Pathak, Debbie L. Wilson, Ching-Yuan Chang, Wei-Hsuan Lo-Ciganic, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
SODA: A Natural Language Processing Package to Extract Social Determinants of Health for Cancer Studies. CoRR abs/2212.03000 (2022) - 2021
- [j24]Braja Gopal Patra, Mohit Manoj Sharma, Veer Vekaria, Prakash Adekkanattu, Olga V. Patterson, Benjamin S. Glicksberg, Lauren A. Lepow, Euijung Ryu, Joanna M. Biernacka, Al'ona Furmanchuk, Thomas J. George, William R. Hogan, Yonghui Wu, Xi Yang, Jiang Bian, Myrna Weissman, Priya Wickramaratne, J. John Mann, Mark Olfson, Thomas R. Campion Jr., Mark G. Weiner, Jyotishman Pathak:
Extracting social determinants of health from electronic health records using natural language processing: a systematic review. J. Am. Medical Informatics Assoc. 28(12): 2716-2727 (2021) - [c45]Zehao Yu, Xi Yang, Chong Dang, Songzi Wu, Prakash Adekkanattu, Jyotishman Pathak, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
A Study of Social and Behavioral Determinants of Health in Lung Cancer Patients Using Transformers-based Natural Language Processing Models. AMIA 2021 - [c44]Hansi Zhang, Xi Yang, Thomas J. George, William R. Hogan, Jiang Bian, Yonghui Wu:
Developing an Ontology for Social and Behavioral Determinants of Health. AMIA 2021 - [c43]Yunpeng Zhao, Pengfei Yin, Yongqiu Li, Xing He, Jingcheng Du, Cui Tao, Yi Guo, Mattia Prosperi, Pierangelo Veltri, Xi Yang, Yonghui Wu, Jiang Bian:
Data and Model Biases in Social Media Analyses: A Case Study of COVID-19 Tweets. AMIA 2021 - [c42]Shubo Tian, Arslan Erdengasileng, Xi Yang, Yi Guo, Yonghui Wu, Jinfeng Zhang, Jiang Bian, Zhe He:
Transformer-based named entity recognition for parsing clinical trial eligibility criteria. BCB 2021: 49:1-49:6 - [c41]Zehao Yu, Xi Yang, Gianna L. Sweeting, Yinghan Ma, Skylar E. Stolte, Ruogu Fang, Yonghui Wu:
Identify Diabetic Retinopathy-related Clinical Concepts Using Transformer-based Natural Language Processing Methods. ICHI 2021: 499-500 - [i3]Xi Yang, Zehao Yu, Yi Guo, Jiang Bian, Yonghui Wu:
Clinical Relation Extraction Using Transformer-based Models. CoRR abs/2107.08957 (2021) - [i2]Zehao Yu, Xi Yang, Chong Dang, Songzi Wu, Prakash Adekkanattu, Jyotishman Pathak, Thomas J. George, William R. Hogan, Yi Guo, Jiang Bian, Yonghui Wu:
A Study of Social and Behavioral Determinants of Health in Lung Cancer Patients Using Transformers-based Natural Language Processing Models. CoRR abs/2108.04949 (2021) - 2020
- [j23]Yunpeng Zhao, Yi Guo, Xing He, Yonghui Wu, Xi Yang, Mattia Prosperi, Yanghua Jin, Jiang Bian:
Assessing mental health signals among sexual and gender minorities using Twitter data. Health Informatics J. 26(2): 765-786 (2020) - [j22]David S. Lindberg, Mattia Prosperi, Ragnhildur I. Bjarnadottir, Jaime Thomas, Marsha Crane, Zhaoyi Chen, Kristen Shear, Laurence M. Solberg, Urszula Alina Snigurska, Yonghui Wu, Yunpeng Xia, Robert J. Lucero:
Identification of important factors in an inpatient fall risk prediction model to improve the quality of care using EHR and electronic administrative data: A machine-learning approach. Int. J. Medical Informatics 143: 104272 (2020) - [j21]Xi Yang, Jiang Bian, Ruogu Fang, Ragnhildur I. Bjarnadottir, William R. Hogan, Yonghui Wu:
Identifying relations of medications with adverse drug events using recurrent convolutional neural networks and gradient boosting. J. Am. Medical Informatics Assoc. 27(1): 65-72 (2020) - [j20]Xi Yang, Jiang Bian, William R. Hogan, Yonghui Wu:
Clinical concept extraction using transformers. J. Am. Medical Informatics Assoc. 27(12): 1935-1942 (2020) - [j19]Jiang Bian, Tianchen Lyu, Alexander T. Loiacono, Tonatiuh Mendoza Viramontes, Gloria P. Lipori, Yi Guo, Yonghui Wu, Mattia Prosperi, Thomas J. George, Christopher A. Harle, Elizabeth A. Shenkman, William R. Hogan:
Assessing the practice of data quality evaluation in a national clinical data research network through a systematic scoping review in the era of real-world data. J. Am. Medical Informatics Assoc. 27(12): 1999-2010 (2020) - [c40]Yi Guo, Xing He, Tianchen Lyu, Hansi Zhang, Yonghui Wu, Xi Yang, Zhaoyi Chen, Merry J. Markham, François Modave, Mengjun Xie, William R. Hogan, Christopher A. Harle, Elizabeth Shenkman, Jiang Bian:
Developing and Validating a Computable Phenotype for the Identification of Transgender and Gender Nonconforming Individuals and Subgroups. AMIA 2020 - [c39]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
2010 – 2019
- 2019
- [j18]Yang Xiang, Jun Xu, Yuqi Si, Zhiheng Li, Laila Rasmy, Yujia Zhou, Firat Tiryaki, Fang Li, Yaoyun Zhang, Yonghui Wu, Xiaoqian Jiang, W. Jim Zheng, Degui Zhi, Cui Tao, Hua Xu:
Time-sensitive clinical concept embeddings learned from large electronic health records. BMC Medical Informatics Decis. Mak. 19-S(2): 139-148 (2019) - [j17]Xi Yang, Tianchen Lyu, Qian Li, Chih-Yin Lee, Jiang Bian, William R. Hogan, Yonghui Wu:
A study of deep learning methods for de-identification of clinical notes in cross-institute settings. BMC Medical Informatics Decis. Mak. 19-S(5): 6 (2019) - [j16]Jun Xu, Zhiheng Li, Qiang Wei, Yonghui Wu, Yang Xiang, Hee-Jin Lee, Yaoyun Zhang, Stephen Wu, Hua Xu:
Applying a deep learning-based sequence labeling approach to detect attributes of medical concepts in clinical text. BMC Medical Informatics Decis. Mak. 19-S(5): 8 (2019) - [c38]Xi Yang, Yan Gong, Nida Waheed, Keith March, Jiang Bian, William R. Hogan, Yonghui Wu:
Identifying Cancer Patients at Risk for Heart Failure Using Machine Learning Methods. AMIA 2019 - [c37]Jun Xu, Zhiheng Li, Qiang Wei, Yonghui Wu, Yang Xiang, Hee-Jin Lee, Yaoyun Zhang, Stephen Wu, Hua Xu:
Detect Attributes of Medical Concepts via Sequence Labeling. ICHI 2019: 1-2 - [c36]Xi Yang, Tianchen Lyu, Chih-Yin Lee, Jiang Bian, William R. Hogan, Yonghui Wu:
A Study of Deep Learning Methods for De-identification of Clinical Notes at Cross Institute Settings. ICHI 2019: 1-3 - [i1]Xi Yang, Yan Gong, Nida Waheed, Keith March, Jiang Bian, William R. Hogan, Yonghui Wu:
Identifying Cancer Patients at Risk for Heart Failure Using Machine Learning Methods. CoRR abs/1910.00582 (2019) - 2018
- [j15]Shumei Miao, Tingyu Xu, Yonghui Wu, Hui Xie, Jingqi Wang, Shenqi Jing, Yaoyun Zhang, Xiaoliang Zhang, Yinshuang Yang, Xin Zhang, Tao Shan, Li Wang, Hua Xu, Shui Wang, Yun Liu:
Extraction of BI-RADS findings from breast ultrasound reports in Chinese using deep learning approaches. Int. J. Medical Informatics 119: 17-21 (2018) - [j14]Ergin Soysal, Jingqi Wang, Min Jiang, Yonghui Wu, Serguei Pakhomov, Hongfang Liu, Hua Xu:
CLAMP - a toolkit for efficiently building customized clinical natural language processing pipelines. J. Am. Medical Informatics Assoc. 25(3): 331-336 (2018) - [j13]Jing Huang, Rui Duan, Rebecca A. Hubbard, Yonghui Wu, Jason H. Moore, Hua Xu, Yong Chen:
PIE: A prior knowledge guided integrated likelihood estimation method for bias reduction in association studies using electronic health records data. J. Am. Medical Informatics Assoc. 25(3): 345-352 (2018) - [j12]Laila Rasmy, Yonghui Wu, Ningtao Wang, Xin Geng, W. Jim Zheng, Fei Wang, Hulin Wu, Hua Xu, Degui Zhi:
A study of generalizability of recurrent neural network-based predictive models for heart failure onset risk using a large and heterogeneous EHR data set. J. Biomed. Informatics 84: 11-16 (2018) - [c35]Yonghui Wu, Xi Yang, Jiang Bian, Yi Guo, Hua Xu, William R. Hogan:
Combine Factual Medical Knowledge and Distributed Word Representation to Improve Clinical Named Entity Recognition. AMIA 2018 - [c34]Hansi Zhang, Zhe He, Xing He, Yi Guo, David R. Nelson, François Modave, Yonghui Wu, William R. Hogan, Mattia Prosperi, Jiang Bian:
Computable Eligibility Criteria through Ontology-driven Data Access: A Case Study of Hepatitis C Virus Trials. AMIA 2018 - [c33]Yunpeng Zhao, Yi Guo, Xing He, Jinhai Huo, Yonghui Wu, Xi Yang, Jiang Bian:
Assessing Mental Health Signals Among Sexual and Gender Minorities using Twitter Data. ICHI Workshops 2018: 51-52 - [c32]Xi Yang, Jiang Bian, Yonghui Wu:
Detecting Medications and Adverse Drug Events in Clinical Notes Using Recurrent Neural Networks. Medication and Adverse Drug Event Detection 2018: 1-6 - 2017
- [j11]Yonghui Wu, Joshua C. Denny, S. Trent Rosenbloom, Randolph A. Miller, Dario A. Giuse, Lulu Wang, Carmelo Blanquicett, Ergin Soysal, Jun Xu, Hua Xu:
A long journey to short abbreviations: developing an open-source framework for clinical abbreviation recognition and disambiguation (CARD). J. Am. Medical Informatics Assoc. 24(e1): e79-e86 (2017) - [c31]Yonghui Wu, Min Jiang, Jun Xu, Degui Zhi, Hua Xu:
Clinical Named Entity Recognition Using Deep Learning Models. AMIA 2017 - [c30]Hua Xu, Ergin Soysal, Jingqi Wang, Min Jiang, Yonghui Wu:
CLAMP - A User-Centric Clinical Natural Language Processing Toolkit. AMIA 2017 - [c29]Jun Xu, Yonghui Wu, Yaoyun Zhang, Qiang Wei, Hua Xu:
Detecting Contradictory and Consistent Citations in Biomedical Literature. AMIA 2017 - [c28]Jun Xu, Yonghui Wu, Yaoyun Zhang, Hua Xu:
Detecting Body Location Modifiers of Disorders in Clinical Texts via Sequence Labeling. AMIA 2017 - [c27]Yaoyun Zhang, Hee-Jin Lee, Yonghui Wu, Hua Xu:
Evaluating Word Embeddings from Multiple Domains for Symptom Recognition in Psychiatric Notes. AMIA 2017 - [c26]Hee-Jin Lee, Min Jiang, Yonghui Wu, Christian Shaffer, John H. Cleator, Eitan Friedman, Joshua P. Lewis, Dan M. Roden, Joshua C. Denny, Hua Xu:
A comparative study of different methods for automatic identification of clopidogrel-induced bleedings in electronic health records. CRI 2017 - [c25]Zongcheng Ji, Yaoyun Zhang, Jun Xu, Xiaoling Chen, Yonghui Wu, Hua Xu:
Comparing Cancer Information Needs for Consumers in the US and China. MedInfo 2017: 126-130 - 2016
- [j10]Jun Xu, Yonghui Wu, Yaoyun Zhang, Jingqi Wang, Hee-Jin Lee, Hua Xu:
CD-REST: a system for extracting chemical-induced disease relation in literature. Database J. Biol. Databases Curation 2016 (2016) - [j9]Yaoyun Zhang, Jun Xu, Hui Chen, Jingqi Wang, Yonghui Wu, Manu Prakasam, Hua Xu:
Chemical named entity recognition in patents by domain knowledge and unsupervised feature learning. Database J. Biol. Databases Curation 2016 (2016) - [j8]Jun Xu, Hee-Jin Lee, Jia Zeng, Yonghui Wu, Yaoyun Zhang, Liang-Chin Huang, Amber M. Johnson, Vijaykumar Holla, Ann M. Bailey, Trevor Cohen, Funda Meric-Bernstam, Elmer V. Bernstam, Hua Xu:
Extracting genetic alteration information for personalized cancer therapy from ClinicalTrials.gov. J. Am. Medical Informatics Assoc. 23(4): 750-757 (2016) - [c24]Rui Duan, Ming Cao, Yonghui Wu, Jing Huang, Joshua C. Denny, Hua Xu, Yong Chen:
An Empirical Study for Impacts of Measurement Errors on EHR based Association Studies. AMIA 2016 - [c23]Yonghui Wu, Jun Xu, Yaoyun Zhang, Hua Xu:
What Can Neural Networks Learn from Unlabeled Clinical Narratives? AMIA 2016 - [c22]Hee-Jin Lee, Hua Xu, Jingqi Wang, Yaoyun Zhang, Sungrim Moon, Jun Xu, Yonghui Wu:
UTHealth at SemEval-2016 Task 12: an End-to-End System for Temporal Information Extraction from Clinical Notes. SemEval@NAACL-HLT 2016: 1292-1297 - 2015
- [j7]Buzhou Tang, Yudong Feng, Xiaolong Wang, Yonghui Wu, Yaoyun Zhang, Min Jiang, Jingqi Wang, Hua Xu:
A comparison of conditional random fields and structured support vector machines for chemical entity recognition in biomedical literature. J. Cheminformatics 7(S-1): S8 (2015) - [j6]Jingchun Sun, Min Zhao, Peilin Jia, Lily Wang, Yonghui Wu, Carissa Iverson, Yubo Zhou, Erica A. Bowton, Dan M. Roden, Joshua C. Denny, Melinda C. Aldrich, Hua Xu, Zhongming Zhao:
Deciphering Signaling Pathway Networks to Understand the Molecular Mechanisms of Metformin Action. PLoS Comput. Biol. 11(6) (2015) - [c21]Jun Xu, Yaoyun Zhang, Yonghui Wu, Jingqi Wang, Xiao Dong, Hua Xu:
Citation Sentiment Analysis in Clinical Trial Papers. AMIA 2015 - [c20]Ergin Soysal, Jingqi Wang, Min Jiang, Yonghui Wu, Hua Xu:
Clinical Language Annotation, Modeling, and Processing Toolkit (CLAMP) - a user-centric NLP system. AMIA 2015 - [c19]Buzhou Tang, Qingcai Chen, Xiaolong Wang, Yonghui Wu, Yaoyun Zhang, Jingqi Wang, Hua Xu:
Recognizing Disjoint Clinical Concepts in Clinical Text Using Machine Learning-based Methods. AMIA 2015 - [c18]Yonghui Wu, Jun Xu, Min Jiang, Yaoyun Zhang, Hua Xu:
A Study of Neural Word Embeddings for Named Entity Recognition in Clinical Text. AMIA 2015 - [c17]Yonghui Wu, Jun Xu, Yaoyun Zhang, Hua Xu:
Clinical Abbreviation Disambiguation Using Neural Word Embeddings. BioNLP@IJCNLP 2015: 171-176 - [c16]Yonghui Wu, Min Jiang, Jianbo Lei, Hua Xu:
Named Entity Recognition in Chinese Clinical Text Using Deep Neural Network. MedInfo 2015: 624-628 - [c15]Jun Xu, Yaoyun Zhang, Jingqi Wang, Yonghui Wu, Min Jiang, Ergin Soysal, Hua Xu:
UTH-CCB: The Participation of the SemEval 2015 Challenge - Task 14. SemEval@NAACL-HLT 2015: 311-314 - 2014
- [c14]Yonghui Wu, Adam Wright, Hua Xu, Allison B. McCoy, Dean F. Sittig:
Development of a Unified Computable Problem-Medication Knowledge base. AMIA 2014 - [c13]Yaoyun Zhang, Buzhou Tang, Min Jiang, Jingqi Wang, Yonghui Wu, Hua Xu:
Domain Adaptation for Semantic Role Labeling of Clinical Text. AMIA 2014 - [c12]Yaoyun Zhang, Jingqi Wang, Buzhou Tang, Yonghui Wu, Min Jiang, Yukun Chen, Hua Xu:
UTH_CCB: A report for SemEval 2014 - Task 7 Analysis of Clinical Text. SemEval@COLING 2014: 802-806 - 2013
- [j5]Buzhou Tang, Yonghui Wu, Min Jiang, Yukun Chen, Joshua C. Denny, Hua Xu:
A hybrid system for temporal information extraction from clinical text. J. Am. Medical Informatics Assoc. 20(5): 828-835 (2013) - [j4]Buzhou Tang, Hongxin Cao, Yonghui Wu, Min Jiang, Hua Xu:
Recognizing clinical entities in hospital discharge summaries using Structural Support Vector Machines with word representation features. BMC Medical Informatics Decis. Mak. 13(S-1): S1 (2013) - [c11]Yonghui Wu, S. Trent Rosenbloom, Joshua C. Denny, Randolph A. Miller, Dario A. Giuse, Hua Xu:
Building a Large Clinical Abbreviation Sense Inventory from Discharge Summaries. AMIA 2013 - [c10]Yonghui Wu, Joshua C. Denny, S. Trent Rosenbloom, Randolph A. Miller, Dario A. Giuse, Min Song, Hua Xu:
A prototype application for real-time recognition and disambiguation of clinical abbreviations. DTMBIO 2013: 7-8 - [c9]Buzhou Tang, Yonghui Wu, Min Jiang, Joshua C. Denny, Hua Xu:
Recognizing and Encoding Discorder Concepts in Clinical Text using Machine Learning and Vector Space Model. CLEF (Working Notes) 2013 - [c8]Yonghui Wu, Buzhou Tang, Min Jiang, Sungrim Moon, Joshua C. Denny, Hua Xu:
Clinical Acronym/Abbreviation Normalization using a Hybrid Approach. CLEF (Working Notes) 2013 - [c7]Yonghui Wu, Jianbo Lei, Wei-Qi Wei, Buzhou Tang, Joshua C. Denny, S. Trent Rosenbloom, Randolph A. Miller, Dario A. Giuse, Kai Zheng, Hua Xu:
Analyzing Differences between Chinese and English Clinical Text: A Cross-Institution Comparison of Discharge Summaries in Two Languages. MedInfo 2013: 662-666 - 2012
- [j3]Jingchun Sun, Yonghui Wu, Hua Xu, Zhongming Zhao:
DTome: a web-based tool for drug-target interactome construction. BMC Bioinform. 13(S-9): S7 (2012) - [j2]Mei Liu, Yonghui Wu, Yukun Chen, Jingchun Sun, Zhongming Zhao, Xue-wen Chen, Michael E. Matheny, Hua Xu:
Large-scale prediction of adverse drug reactions using chemical, biological, and phenotypic properties of drugs. J. Am. Medical Informatics Assoc. 19(e1) (2012) - [j1]Hua Xu, Yonghui Wu, Noemie Elhadad, Peter D. Stetson, Carol Friedman:
A new clustering method for detecting rare senses of abbreviations in clinical notes. J. Biomed. Informatics 45(6): 1075-1083 (2012) - [c6]Anushi Shah, Min Jiang, Yonghui Wu, Joshua C. Denny, Hua Xu:
MedEx-UIMA - An Open-Source System for Medication Information Extraction from Clinical Text. AMIA 2012 - [c5]Buzhou Tang, Yonghui Wu, Min Jiang, Hua Xu:
Clinical Entity Recognition Using Structural Support Vector Machines. AMIA 2012 - [c4]Yonghui Wu, Joshua C. Denny, Samuel Rosenbloom, Randolph A. Miller, Dario A. Giuse, Hua Xu:
A comparative study of current clinical natural language processing systems on handling abbreviations in discharge summaries. AMIA 2012 - [c3]Buzhou Tang, Hongxin Cao, Yonghui Wu, Min Jiang, Hua Xu:
Clinical entity recognition using structural support vector machines with rich features. DTMBIO@CIKM 2012: 13-20 - [c2]Mei Liu, Michael E. Matheny, Yonghui Wu, Eugenia R. McPeek Hinz, Joshua C. Denny, Jonathan S. Schildcrout, Randolph A. Miller, Hua Xu:
Detecting Adverse Drug Reactions Using Inpatient Medication Orders and Laboratory Tests Data. HISB 2012: 131 - [c1]Yonghui Wu, Mei Liu, W. Jim Zheng, Zhongming Zhao, Hua Xu:
Ranking Gene-Drug Relationships in Biomedical Literature Using Latent Dirichlet Allocation. Pacific Symposium on Biocomputing 2012: 422-433
Coauthor Index
[j40] [j39] [c56] [c55] [i22] [j38] [j37] [j36] [j35] [j34] [c54] [c53] [c52] [i20] [i19] [i18] [i17] [i16] [i14] [j33] [j32] [j31] [j30] [j29] [j28] [c50] [c49] [c48] [i13] [i12] [i11] [i9] [i8] [i7] [i6] [j27] [j25] [c46] [i5] [i4] [j24] [c45] [c44] [c43] [c42] [i3] [i2] [j23] [j21] [j20] [j19] [c40] [c39] [j17] [c38] [c36] [i1] [c35] [c34] [c33] [c32]
[j40] [j39] [i20] [j33] [c39] [j18] [j16] [c37] [j15] [j14] [j13] [j12] [c35] [j11] [c31] [c30] [c29] [c28] [c27] [c26] [c25] [j10] [j9] [j8] [c24] [c23] [c22] [j7] [j6] [c21] [c20] [c19] [c18] [c17] [c16] [c15] [c14] [c13] [c12] [j5] [j4] [c11] [c10] [c9] [c8] [c7] [j3] [j2] [j1] [c6] [c5] [c4] [c3] [c2] [c1]
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