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2020 – today
- 2024
[j28]Surabhi Datta
, Kyeryoung Lee, Hunki Paek, Frank J. Manion, Nneka Ofoegbu, Jingcheng Du, Ying Li, Liang-Chin Huang, Jingqi Wang, Bin Lin, Hua Xu, Xiaoyan Wang:
AutoCriteria: a generalizable clinical trial eligibility criteria extraction system powered by large language models. J. Am. Medical Informatics Assoc. 31(2): 375-385 (2024)- [j27]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) - 2023
- [j26]Meng Zhang, Madhuri Sankaranarayanapillai, Jingcheng Du, Yang Xiang, Frank J. Manion, Marcelline R. Harris, Cooper Stansbury, Huy Anh Pham, Cui Tao:
Machine learning-based donor permission extraction from informed consent documents. BMC Bioinform. 24(1): 477 (2023) - [j25]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) - [j24]Sicen Liu, Xiaolong Wang, Jingcheng Du, Yongshuai Hou, Xianbing Zhao, Hui Xu, Hui Wang, Yang Xiang, Buzhou Tang:
SHAPE: A Sample-Adaptive Hierarchical Prediction Network for Medication Recommendation. IEEE J. Biomed. Health Informatics 27(12): 6018-6028 (2023) - [i11]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) - [i10]Sicen Liu, Xiaolong Wang, Jingcheng Du, Yongshuai Hou, Xianbing Zhao, Hui Xu, Hui Wang, Yang Xiang, Buzhou Tang:
SHAPE: A Sample-adaptive Hierarchical Prediction Network for Medication Recommendation. CoRR abs/2309.05675 (2023) - 2022
- [j23]Qingyu Chen, Alexis Allot, Robert Leaman, Rezarta Islamaj, Jingcheng Du, Li Fang, Wang Kai, Shuo Xu, Yuefu Zhang, Parsa Bagherzadeh, Sabine Bergler, Aakash Bhatnagar, Nidhir Bhavsar, Yung-Chun Chang, Sheng-Jie Lin, Wentai Tang, Hongtong Zhang, Ilija Tavchioski, Senja Pollak, Shubo Tian, Jinfeng Zhang, Yulia Otmakhova, Antonio Jimeno-Yepes, Hang Dong, Honghan Wu, Richard Dufour, Yanis Labrak, Niladri Chatterjee, Kushagri Tandon, Fréjus A. A. Laleye, Loïc Rakotoson, Emmanuele Chersoni, Jinghang Gu, Annemarie Friedrich, Subhash Chandra Pujari, Mariia Chizhikova, Naveen Sivadasan, Saipradeep Vg, Zhiyong Lu:
Multi-label classification for biomedical literature: an overview of the BioCreative VII LitCovid Track for COVID-19 literature topic annotations. Database J. Biol. Databases Curation 2022(2022) (2022) - [j22]Yi Nian, Xinyue Hu, Rui Zhang, Jingna Feng, Jingcheng Du, Fang Li, Larry Bu, Yuji Zhang, Yong Chen, Cui Tao:
Mining on Alzheimer's diseases related knowledge graph to identity potential AD-related semantic triples for drug repurposing. BMC Bioinform. 23-S(6): 407 (2022) - [j21]Qingyu Chen, Jingcheng Du, Alexis Allot, Zhiyong Lu:
LitMC-BERT: Transformer-Based Multi-Label Classification of Biomedical Literature With An Application on COVID-19 Literature Curation. IEEE ACM Trans. Comput. Biol. Bioinform. 19(5): 2584-2595 (2022) - [c29]Evan Yu, Cui Tao, Jingcheng Du, Degui Zhi, Yang Xiang, Kayo Fujimoto, Xi Luo, John A. Schneider:
Combining Transfer Learning with Graph Attention Models for HIV Risk Prediction. AMIA 2022 - [c28]Jingqi Wang, Yaoyun Zhang, Bin Lin, Huy Anh Pham, Long He, Jingcheng Du, Frank J. Manion:
LANN: an Integrated Online Annotation Tool for Information Extraction. ICHI 2022: 461-464 - [c27]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 - [i9]Yi Nian, Xinyue Hu, Rui Zhang, Jingna Feng, Jingcheng Du, Fang Li, Yong Chen, Cui Tao:
Mining On Alzheimer's Diseases Related Knowledge Graph to Identity Potential AD-related Semantic Triples for Drug Repurposing. CoRR abs/2202.08712 (2022) - [i8]Qingyu Chen, Jingcheng Du, Alexis Allot, Zhiyong Lu:
LitMC-BERT: transformer-based multi-label classification of biomedical literature with an application on COVID-19 literature curation. CoRR abs/2204.08649 (2022) - [i7]Qingyu Chen, Alexis Allot, Robert Leaman, Rezarta Islamaj Dogan, Jingcheng Du, Li Fang, Wang Kai, Shuo Xu, Yuefu Zhang, Parsa Bagherzadeh, Sabine Bergler, Aakash Bhatnagar, Nidhir Bhavsar, Yung-Chun Chang, Sheng-Jie Lin, Wentai Tang, Hongtong Zhang, Ilija Tavchioski, Shubo Tian, Jinfeng Zhang, Yulia Otmakhova, Antonio Jimeno-Yepes, Hang Dong, Honghan Wu, Richard Dufour, Yanis Labrak, Niladri Chatterjee, Kushagri Tandon, Fréjus A. A. Laleye, Loïc Rakotoson, Emmanuele Chersoni, Jinghang Gu, Annemarie Friedrich, Subhash Chandra Pujari, Mariia Chizhikova, Naveen Sivadasan, Zhiyong Lu:
Multi-label classification for biomedical literature: an overview of the BioCreative VII LitCovid Track for COVID-19 literature topic annotations. CoRR abs/2204.09781 (2022) - [i6]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
- [j20]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) - [j19]Jingcheng Du, Qing Wang, Jingqi Wang, Prerana Ramesh, Yang Xiang, Xiaoqian Jiang, Cui Tao:
COVID-19 trial graph: a linked graph for COVID-19 clinical trials. J. Am. Medical Informatics Assoc. 28(9): 1964-1969 (2021) - [j18]Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts:
Deep representation learning of patient data from Electronic Health Records (EHR): A systematic review. J. Biomed. Informatics 115: 103671 (2021) - [c26]Qingyu Chen, Jingcheng Du, Alexis Allot, Zhiyong Lu:
AM2BERT: attention guided and regularized transformer-based multi-label classification model for COVID-19 literature curation. AMIA 2021 - [c25]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 - [c24]Samuel Wang, Jingcheng Du, Lu Tang, Cui Tao:
Understanding Public Perceptions of Measles from Twitter Using Multi-Task Convolutional Neural Networks. MedInfo 2021: 607-611 - [i5]Yi Nian, Jingcheng Du, Larry Bu, Fang Li, Xinyue Hu, Yuji Zhang, Cui Tao:
Knowledge Graph-based Neurodegenerative Diseases and Diet Relationship Discovery. CoRR abs/2109.06123 (2021) - 2020
- [j17]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) - [j16]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) - [j15]Rui Duan, Xinyuan Zhang, Jingcheng Du, Jing Huang, Cui Tao, Yong Chen:
On the evidence consistency of pharmacovigilance outcomes between Food and Drug Administration Adverse Event Reporting System and electronic medical record data for acute mania patients. Health Informatics J. 26(2): 753-764 (2020) - [j14]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) - [j13]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) - [j12]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) - [j11]Qingyu Chen, Jingcheng Du, Sun Kim, W. John Wilbur, Zhiyong Lu:
Deep learning with sentence embeddings pre-trained on biomedical corpora improves the performance of finding similar sentences in electronic medical records. BMC Medical Informatics Decis. Mak. 20-S(1): 73 (2020) - [c23]Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts:
Deep Representation Learning of Patient Data from Electronic Health Records: A Systematic Review. AMIA 2020 - [i4]Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts:
Deep Representation Learning of Patient Data from Electronic Health Records (EHR): A Systematic Review. CoRR abs/2010.02809 (2020)
2010 – 2019
- 2019
- [j10]Jingcheng Du, Qingyu Chen, Yifan Peng, Yang Xiang, Cui Tao, Zhiyong Lu:
ML-Net: multi-label classification of biomedical texts with deep neural networks. J. Am. Medical Informatics Assoc. 26(11): 1279-1285 (2019) - [j9]Jing Huang, Xinyuan Zhang, Jiayi Tong, Jingcheng Du, Rui Duan, Liu Yang, Jason H. Moore, Cui Tao, Yong Chen:
Comparing drug safety of hepatitis C therapies using post-market data. BMC Medical Informatics Decis. Mak. 19-S(4): 147:1-147:12 (2019) - [j8]Jingcheng Du, Rachel Cunningham, Yang Xiang, Fang Li, Yuxi Jia, Julie A. Boom, Sahiti Myneni, Jiang Bian, Chongliang Luo, Yong Chen, Cui Tao:
Leveraging deep learning to understand health beliefs about the Human Papillomavirus Vaccine from social media. npj Digit. Medicine 2 (2019) - [c22]Qiang Wei, Zongcheng Ji, Yuqi Si, Jingcheng Du, Jingqi Wang, Firat Tiryaki, Stephen Wu, Cui Tao, Kirk Roberts, Hua Xu:
Relation Extraction from Clinical Narratives Using Pre-trained Language Models. AMIA 2019 - [c21]Qingyu Chen, Jingcheng Du, Sun Kim, W. John Wilbur, Zhiyong Lu:
Evaluation of Five Sentence Similarity Models on Electronic Medical Records. BCB 2019: 533 - [c20]Fang Li, Mingqiang Wang, Huy Anh Pham, Yang Xiang, Muhammad Tuan Amith, Cui Tao, Jingcheng Du, Guozheng Rao:
Systematic Design of Drug Repurposing-Oriented Alzheimer's Disease Ontology. ICHI 2019: 1-5 - [c19]Graciela Gonzalez, Zhiyong Lu, Robert Leaman, Davy Weissenbacher, Mary Regina Boland, Yong Chen, Jingcheng Du, Juliane Fluck, Casey S. Greene, John H. Holmes, Aditya Kashyap, Rikke Linnemann Nielsen, Zhengqing Ouyang, Sebastian Schaaf, Jaclyn N. Taroni, Cui Tao, Yuping Zhang, Hongfang Liu:
Text Mining and Machine Learning for Precision Medicine. PSB 2019: 449-454 - [i3]Jingcheng Du, Chongliang Luo, Qiang Wei, Yong Chen, Cui Tao:
Exploring difference in public perceptions on HPV vaccine between gender groups from Twitter using deep learning. CoRR abs/1907.03167 (2019) - [i2]Qingyu Chen, Jingcheng Du, Sun Kim, W. John Wilbur, Zhiyong Lu:
Deep learning with sentence embeddings pre-trained on biomedical corpora improves the performance of finding similar sentences in electronic medical records. CoRR abs/1909.03044 (2019) - 2018
- [j7]Jingcheng Du, Yaoyun Zhang, Jianhong Luo, Yuxi Jia, Qiang Wei, Cui Tao, Hua Xu:
Extracting psychiatric stressors for suicide from social media using deep learning. BMC Medical Informatics Decis. Mak. 18(S-2): 77-87 (2018) - [c18]Jingcheng Du, Fang Li, Yuxi Jia, Yang Xiang, Lu Tang, Sahiti Myneni, Cui Tao:
Mining Human Papillomavirus Vaccination Health Beliefs from Twitter Using Attentive Recurrent Neural Network. AMIA 2018 - [c17]Fang Li, Jingcheng Du, Guozheng Rao, Cui Tao:
Construction of Drug Repurposing-oriented Alzheimer's Disease Ontology. AMIA 2018 - [c16]Jiayi Tong, Jing Huang, Jingcheng Du, Yi Cai, Cui Tao, Yong Chen:
Identification of Rare Adverse Events with Year-varying Reporting Rates for FLU4 Vaccine in VAERS. AMIA 2018 - [c15]Yang Xiang, Jun Xu, Jingcheng Du, Degui Zhi, Cui Tao:
Asthma Onset Prediction Using Structured EMR Data. AMIA 2018 - [c14]Jun Xu, Yaoyun Zhang, Jingcheng Du, Jingqi Wang, Firat Tiryaki, Hua Xu:
Detecting Anatomical Entities in Clinical Text. AMIA 2018 - [c13]Jing Huang, Xinyuan Zhang, Jiayi Tong, Jingcheng Du, Rui Duan, Liu Yang, Jason H. Moore, Yong Chen, Cui Tao:
Comparing adverse effects of Hepatitis C drugs using FAERS data. BIBM 2018: 1653-1656 - [c12]Jianhong Luo, Jingcheng Du, Cui Tao, Hua Xu, Yaoyun Zhang:
Exploring Temporal Patterns of Suicidal Behavior on Twitter. ICHI Workshops 2018: 55-56 - [c11]Xinyuan Zhang, Rui Duan, Jingcheng Du, Jing Huang, Yong Chen, Cui Tao:
Comparing Pharmacovigilance Outcomes Between FAERS and EMR Data for Acute Mania Patients. ICHI Workshops 2018: 57-59 - [c10]Fang Li, Guozheng Rao, Jingcheng Du, Yang Xiang, Yaoyun Zhang, Salih Selek, Jane Elizabeth Hamilton, Hua Xu, Cui Tao:
Term Standardization and Normalization for Research Domain Criteria (RDoC). ICHI Workshops 2018: 60-61 - [i1]Jingcheng Du, Qingyu Chen, Yifan Peng, Yang Xiang, Cui Tao, Zhiyong Lu:
ML-Net: multi-label classification of biomedical texts with deep neural networks. CoRR abs/1811.05475 (2018) - 2017
- [j6]Jingcheng Du, Jun Xu, Hsing-yi Song, Xiangyu Liu, Cui Tao:
Optimization on machine learning based approaches for sentiment analysis on HPV vaccines related tweets. J. Biomed. Semant. 8(1): 9:1-9:7 (2017) - [j5]Jingcheng Du, Jun Xu, Hsing-yi Song, Cui Tao:
Leveraging machine learning-based approaches to assess human papillomavirus vaccination sentiment trends with Twitter data. BMC Medical Informatics Decis. Mak. 17(2): 63-70 (2017) - [j4]Yi Cai, Jingcheng Du, Jing Huang, Susan S. Ellenberg, Sean Hennessy, Cui Tao, Yong Chen:
A signal detection method for temporal variation of adverse effect with vaccine adverse event reporting system data. BMC Medical Informatics Decis. Mak. 17(2): 93-100 (2017) - [c9]Hansi Zhang, Yunpeng Zhao, Christopher Wheldon, Xinsong Du, Terrell Brown, Yi Guo, Stephanie Staras, Jingcheng Du, Cui Tao, Jiang Bian:
A Twitter Study of the Relationship between the Geographic Variations of HPV Vaccination Rates and Online Information in the United States. AMIA 2017 - [c8]Jingcheng Du, Yaoyun Zhang, Cui Tao, Hua Xu:
A pilot study of mining association between psychiatric stressors and symptoms in tweets. BIBM 2017: 1254-1257 - [c7]Jingcheng Du, Jun Xu, Hsing-yi Song, Cui Tao:
Leveraging Machine Learning Based Approaches to Assess Human Papillomavirus Vaccination Sentiment Trends with Twitter. CRI 2017 - [c6]Rui Duan, Xinyuan Zhang, Jingcheng Du, Jing Huang, Cui Tao, Yong Chen:
Post-marketing Drug Safety Evaluation Using Data Mining Based on FAERS. DMBD 2017: 379-389 - [c5]Jingcheng Du, Jing Huang, Rui Duan, Yong Chen, Cui Tao:
Comparing the Human Papillomavirus Vaccination Opinions Trends from Different Twitter User Groups with a Machine Learning Based System and Semiparametric Nonlinear Regression. MedInfo 2017: 1218 - [c4]Jing Huang, Xinyuan Zhang, Jingcheng Du, Rui Duan, Liu Yang, Jason H. Moore, Yong Chen, Cui Tao:
Comparing Different Adverse Effects Among Multiple Drugs Using FAERS Data. MedInfo 2017: 1268 - 2016
- [j3]Yaoyun Zhang, Heng-Yi Wu, Jingcheng Du, Jun Xu, Jingqi Wang, Cui Tao, Lang Li, Hua Xu:
Extracting drug-enzyme relation from literature as evidence for drug drug interaction. J. Biomed. Semant. 7: 11 (2016) - [j2]Jingcheng Du, Yi Cai, Yong Chen, Cui Tao:
Trivalent influenza vaccine adverse symptoms analysis based on MedDRA terminology using VAERS data in 2011. J. Biomed. Semant. 7: 13 (2016) - [j1]Yaoyun Zhang, Heng-Yi Wu, Jingcheng Du, Jun Xu, Jingqi Wang, Cui Tao, Lang Li, Hua Xu:
Erratum to: Extracting drug-enzyme relation from literature as evidence for drug drug interaction. J. Biomed. Semant. 7: 21 (2016) - [c3]Mohcine Madkour, Hsing-yi Song, Jingcheng Du, Cui Tao:
A representational analysis of a temporal indeterminancy display in clinical events. BIBM 2016: 1089-1095 - 2015
- [c2]Cui Tao, Jingcheng Du, Yi Cai, Yong Chen:
Trivalent Influenza Vaccine Adverse Event Analysis Based On MedDRA System Organ Classes Using VAERS Data. MedInfo 2015: 1076 - 2014
- [c1]W. Jim Zheng, Jingcheng Du, Jijun Tang, Cui Tao:
GSO: A Semantic Web Ontology to Capture 3D Genome Structure. SWAT4LS 2014
Coauthor Index
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