Mapping vaccine names in clinical trials to vaccine ontology using cascaded fine-tuned domain-specific language models
Li, Jianfu, Li, Yiming, Pan, Yuanyi, Guo, Jinjing, Sun, Zenan, Li, Fang, He, Yongqun, Tao, Cui
Published in Journal of biomedical semantics (10.08.2024)
Published in Journal of biomedical semantics (10.08.2024)
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Journal Article
Profiling COVID-19 Vaccine Adverse Events by Statistical and Ontological Analysis of VAERS Case Reports
Guo, Wenxin, Deguise, Jessica, Tian, Yujia, Huang, Philip Chi-En, Goru, Rohit, Yang, Qiuyue, Peng, Suyuan, Zhang, Luxia, Zhao, Lili, Xie, Jiangan, He, Yongqun
Published in Frontiers in pharmacology (24.06.2022)
Published in Frontiers in pharmacology (24.06.2022)
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Journal Article
ICEO, a biological ontology for representing and analyzing bacterial integrative and conjugative elements
Liu, Meng, Liu, Jialin, Liu, Guitian, Wang, Hui, Wang, Xiaoli, Deng, Zixin, He, Yongqun, Ou, Hong-Yu
Published in Scientific data (20.01.2022)
Published in Scientific data (20.01.2022)
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Journal Article
Identification of missing hierarchical relations in the vaccine ontology using acquired term pairs
Manuel, Warren, Abeysinghe, Rashmie, He, Yongqun, Tao, Cui, Cui, Licong
Published in Journal of biomedical semantics (13.08.2022)
Published in Journal of biomedical semantics (13.08.2022)
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Journal Article
A statistical analysis of vaccine-adverse event data
Ren, Jian-Jian, Sun, Tingni, He, Yongqun, Zhang, Yuji
Published in BMC medical informatics and decision making (28.05.2019)
Published in BMC medical informatics and decision making (28.05.2019)
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Journal Article
VIGET: A web portal for study of vaccine-induced host responses based on Reactome pathways and ImmPort data
Brunson, Timothy, Sanati, Nasim, Huffman, Anthony, Masci, Anna Maria, Zheng, Jie, Cooke, Michael F, Conley, Patrick, He, Yongqun, Wu, Guanming
Published in Frontiers in immunology (21.03.2023)
Published in Frontiers in immunology (21.03.2023)
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Journal Article
Geographic and Temporal Trends in COVID-Associated Acute Kidney Injury in the National COVID Cohort Collaborative
Yoo, Yun J, Wilkins, Kenneth J, Alakwaa, Fadhl, Liu, Feifan, Torre-Healy, Luke A, Krichevsky, Spencer, Hong, Stephanie S, Sakhuja, Ankit, Potu, Chetan K, Saltz, Joel H, Saran, Rajiv, Zhu, Richard L, Setoguchi, Soko, Kane-Gill, Sandra L, Mallipattu, Sandeep K, He, Yongqun, Ellison, David H, Byrd, James B, Parikh, Chirag R, Moffitt, Richard A, Koraishy, Farrukh M
Published in Clinical journal of the American Society of Nephrology (01.08.2023)
Published in Clinical journal of the American Society of Nephrology (01.08.2023)
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Ontology-Based Meta-Analysis of Animal and Human Adverse Events Associated With Licensed Brucellosis Vaccines
Xie, Jiangan, Wang, Jessica, Li, Zhangyong, Wang, Wei, Pang, Yu, He, Yongqun
Published in Frontiers in pharmacology (15.05.2018)
Published in Frontiers in pharmacology (15.05.2018)
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Journal Article
Potential transmission chains of variant B.1.1.7 and co-mutations of SARS-CoV-2
Zhang, Jingsong, Zhang, Yang, Kang, Jun-Yan, Chen, Shuiye, He, Yongqun, Han, Benhao, Liu, Mo-Fang, Lu, Lina, Li, Li, Yi, Zhigang, Chen, Luonan
Published in Cell discovery (15.06.2021)
Published in Cell discovery (15.06.2021)
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Journal Article
Empowering standardization of cancer vaccines through ontology: enhanced modeling and data analysis
Zheng, Jie, Li, Xingxian, Masci, Anna Maria, Kahn, Hayleigh, Huffman, Anthony, Asfaw, Eliyas, Pan, Yuanyi, Guo, Jinjing, He, Virginia, Song, Justin, Seleznev, Andrey I, Lin, Asiyah Yu, He, Yongqun
Published in Journal of biomedical semantics (19.06.2024)
Published in Journal of biomedical semantics (19.06.2024)
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Journal Article
VaximmutorDB: A Web-Based Vaccine Immune Factor Database and Its Application for Understanding Vaccine-Induced Immune Mechanisms
Berke, Kimberly, Sun, Peter, Ong, Edison, Sanati, Nasim, Huffman, Anthony, Brunson, Timothy, Loney, Fred, Ostrow, Joseph, Racz, Rebecca, Zhao, Bin, Xiang, Zuoshuang, Masci, Anna Maria, Zheng, Jie, Wu, Guanming, He, Yongqun
Published in Frontiers in immunology (12.03.2021)
Published in Frontiers in immunology (12.03.2021)
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Journal Article
CIDO ontology updates and secondary analysis of host responses to COVID-19 infection based on ImmPort reports and literature
Huffman, Anthony, Masci, Anna Maria, Zheng, Jie, Sanati, Nasim, Brunson, Timothy, Wu, Guanming, He, Yongqun
Published in Journal of biomedical semantics (28.08.2021)
Published in Journal of biomedical semantics (28.08.2021)
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Journal Article
Ontological representation, integration, and analysis of LINCS cell line cells and their cellular responses
Ong, Edison, Xie, Jiangan, Ni, Zhaohui, Liu, Qingping, Sarntivijai, Sirarat, Lin, Yu, Cooper, Daniel, Terryn, Raymond, Stathias, Vasileios, Chung, Caty, Schürer, Stephan, He, Yongqun
Published in BMC bioinformatics (21.12.2017)
Published in BMC bioinformatics (21.12.2017)
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