Works by Ong, Edison

Results: 26

Identification of Mycobacterium tuberculosis Antigens with Vaccine Potential Using a Machine Learning-Based Reverse Vaccinology Approach.

Published in:

Vaccines, 2021, v. 9, n. 10, p. 1098, doi. 10.3390/vaccines9101098

By:

Teahan, Blaine;
Ong, Edison;
Yang, Zhenhua

Publication type:

Article

Reverse Microbiomics: A New Reverse Dysbiosis Analysis Strategy and Its Usage in Prediction of Autoantigens and Virulent Factors in Dysbiotic Gut Microbiomes From Rheumatoid Arthritis Patients.

Published in:

Frontiers in Microbiology, 2021, v. 11, p. N.PAG, doi. 10.3389/fmicb.2021.633732

By:

Wang, Haihe;
Ong, Edison;
Kao, John Y.;
Sun, Duxin;
He, Yongqun

Publication type:

Article

Antibiotic Resistance Determinant-Focused Acinetobacter baumannii Vaccine Designed Using Reverse Vaccinology.

Published in:

International Journal of Molecular Sciences, 2017, v. 18, n. 2, p. 458, doi. 10.3390/ijms18020458

By:

Zhaohui Ni;
Yan Chen;
Edison Ong;
Yongqun He

Publication type:

Article

VIO: ontology classification and study of vaccine responses given various experimental and analytical conditions.

Published in:

BMC Bioinformatics, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s12859-019-3194-6

By:

Ong, Edison;
Sun, Peter;
Berke, Kimberly;
Zheng, Jie;
Wu, Guanming;
He, Yongqun

Publication type:

Article

ODAE: Ontology-based systematic representation and analysis of drug adverse events and its usage in study of adverse events given different patient age and disease conditions.

Published in:

BMC Bioinformatics, 2019, v. 20, n. 7, p. 1, doi. 10.1186/s12859-019-2729-1

By:

Yu, Hong;
Nysak, Solomiya;
Garg, Noemi;
Ong, Edison;
Ye, Xianwei;
Zhang, Xiangyan;
He, Yongqun

Publication type:

Article

OSCI: standardized stem cell ontology representation and use cases for stem cell investigation.

Published in:

BMC Bioinformatics, 2019, v. 20, n. 1, p. 237, doi. 10.1186/s12859-019-2723-7

By:

He, Yongqun;
Duncan, William D.;
Cooper, Daniel J.;
Hansen, Jens;
Iyengar, Ravi;
Ong, Edison;
Walker, Kendal;
Tibi, Omar;
Smith, Sam;
Serra, Lucas M.;
Zheng, Jie;
Sarntivijai, Sirarat;
Schürer, Stephan;
O'Shea, K. Sue;
Diehl, Alexander D.

Publication type:

Article

COVID-19 vaccine design using reverse and structural vaccinology, ontology-based literature mining and machine learning.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 4, p. 1, doi. 10.1093/bib/bbac190

By:

Huffman, Anthony;
Ong, Edison;
Hur, Junguk;
D'Mello, Adonis;
Tettelin, Hervé;
He, Yongqun

Publication type:

Article

Ontological representation, integration, and analysis of LINCS cell line cells and their cellular responses.

Published in:

BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-017-1981-5

By:

Ong, Edison;
Jiangan Xie;
Zhaohui Ni;
Qingping Liu;
Sarntivijai, Sirarat;
Yu Lin;
Cooper, Daniel;
Terryn, Raymond;
Stathias, Vasileios;
Chung, Caty;
Schürer, Stephan;
Yongqun He

Publication type:

Article

Comparison, alignment, and synchronization of cell line information between CLO and EFO.

Published in:

BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-017-1979-z

By:

Ong, Edison;
Sarntivijai, Sirarat;
Jupp, Simon;
Parkinson, Helen;
Yongqun He

Publication type:

Article

Vaxign-ML: supervised machine learning reverse vaccinology model for improved prediction of bacterial protective antigens.

Published in:

Bioinformatics, 2020, v. 36, n. 10, p. 3185, doi. 10.1093/bioinformatics/btaa119

By:

Ong, Edison;
Wang, Haihe;
Wong, Mei U;
Seetharaman, Meenakshi;
Valdez, Ninotchka;
He, Yongqun

Publication type:

Article

Prediction of kinase inhibitor response using activity profiling, in vitro screening, and elastic net regression.

Published in:

BMC Systems Biology, 2014, v. 8, n. 1, p. 1, doi. 10.1186/1752-0509-8-74

By:

Tran, Trish P.;
Ong, Edison;
Hodges, Andrew P.;
Paternostro, Giovanni;
Piermarocchi, Carlo

Publication type:

Article

A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology.

Published in:

Journal of Biomedical Semantics, 2022, v. 13, n. 1, p. 1, doi. 10.1186/s13326-022-00279-z

By:

He, Yongqun;
Yu, Hong;
Huffman, Anthony;
Lin, Asiyah Yu;
Natale, Darren A.;
Beverley, John;
Zheng, Ling;
Perl, Yehoshua;
Wang, Zhigang;
Liu, Yingtong;
Ong, Edison;
Wang, Yang;
Huang, Philip;
Tran, Long;
Du, Jinyang;
Shah, Zalan;
Shah, Easheta;
Desai, Roshan;
Huang, Hsin-hui;
Tian, Yujia

Publication type:

Article

The eXtensible ontology development (XOD) principles and tool implementation to support ontology interoperability.

Published in:

Journal of Biomedical Semantics, 2018, v. 9, p. 1, doi. 10.1186/s13326-017-0169-2

By:

He, Yongqun;
Xiang, Zuoshuang;
Zheng, Jie;
Lin, Yu;
Overton, James A.;
Ong, Edison

Publication type:

Article

VaximmutorDB: A Web-Based Vaccine Immune Factor Database and Its Application for Understanding Vaccine-Induced Immune Mechanisms.

Published in:

Frontiers in Immunology, 2021, v. 11, p. N.PAG, doi. 10.3389/fimmu.2021.639491

By:

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

Publication type:

Article

Vaxign2: the second generation of the first Web-based vaccine design program using reverse vaccinology and machine learning.

Published in:

Nucleic Acids Research, 2021, v. 49, n. W1, p. W671, doi. 10.1093/nar/gkab279

By:

Ong, Edison;
Cooke, Michael F;
Huffman, Anthony;
Xiang, Zuoshuang;
Wong, Mei U;
Wang, Haihe;
Seetharaman, Meenakshi;
Valdez, Ninotchka;
He, Yongqun

Publication type:

Article

Victors: a web-based knowledge base of virulence factors in human and animal pathogens.

Published in:

Nucleic Acids Research, 2019, v. 47, n. D1, p. D693, doi. 10.1093/nar/gky999

By:

Sayers, Samantha;
Li, Li;
Ong, Edison;
Deng, Shunzhou;
Fu, Guanghua;
Lin, Yu;
Yang, Brian;
Zhang, Shelley;
Fa, Zhenzong;
Zhao, Bin;
Xiang, Zuoshuang;
Li, Yongqing;
Zhao, Xing-Ming;
Olszewski, Michal A;
Chen, Luonan;
He, Yongqun

Publication type:

Article

Ontobee: A linked ontology data server to support ontology term dereferencing, linkage, query and integration.

Published in:

Nucleic Acids Research, 2017, v. 45, n. D1, p. D347, doi. 10.1093/nar/gkw918

By:

Ong, Edison;
Zuoshuang Xiang;
Bin Zhao;
Yue Liu;
Yu Lin;
Jie Zheng;
Mungall, Chris;
Courtot, Mélanie;
Ruttenberg, Alan;
Yongqun He

Publication type:

Article

Identification of New Features from Known Bacterial Protective Vaccine Antigens Enhances Rational Vaccine Design.

Published in:

Frontiers in Immunology, 2017, p. 1, doi. 10.3389/fimmu.2017.01382

By:

Ong, Edison;
Wong, Mei U.;
Yongqun He

Publication type:

Article

Combinations of Kinase Inhibitors Protecting Myoblasts against Hypoxia.

Published in:

PLoS ONE, 2015, v. 10, n. 6, p. 1, doi. 10.1371/journal.pone.0126718

By:

Kang, Yunyi;
Tierney, Matthew;
Ong, Edison;
Zhang, Linda;
Piermarocchi, Carlo;
Sacco, Alessandra;
Paternostro, Giovanni

Publication type:

Article

Identification of Drug Combinations Containing Imatinib for Treatment of BCR-ABL+ Leukemias.

Published in:

PLoS ONE, 2014, v. 9, n. 7, p. 1, doi. 10.1371/journal.pone.0102221

By:

Kang, Yunyi;
Hodges, Andrew;
Ong, Edison;
Roberts, William;
Piermarocchi, Carlo;
Paternostro, Giovanni

Publication type:

Article

CanVaxKB: a web-based cancer vaccine knowledgebase.

Published in:

NAR Cancer, 2024, v. 6, n. 1, p. 1, doi. 10.1093/narcan/zcad060

By:

Asfaw, Eliyas;
Lin, Asiyah Yu;
Huffman, Anthony;
Li, Siqi;
George, Madison;
Darancou, Chloe;
Kalter, Madison;
Wehbi, Nader;
Bartels, Davis;
Fleck, Elyse;
Tran, Nancy;
Faghihnia, Daniel;
Berke, Kimberly;
Sutariya, Ronak;
Reyal, Farah;
Tammam, Youssef;
Zhao, Bin;
Ong, Edison;
Xiang, Zuoshuang;
He, Virginia

Publication type:

Article

CIDO, a community-based ontology for coronavirus disease knowledge and data integration, sharing, and analysis.

Published in:

Scientific Data, 2020, v. 7, n. 1, p. 1, doi. 10.1038/s41597-020-0523-6

By:

He, Yongqun;
Yu, Hong;
Ong, Edison;
Wang, Yang;
Liu, Yingtong;
Huffman, Anthony;
Huang, Hsin-hui;
Beverley, John;
Hur, Junguk;
Yang, Xiaolin;
Chen, Luonan;
Omenn, Gilbert S.;
Athey, Brian;
Smith, Barry

Publication type:

Article

COVID-19 Coronavirus Vaccine Design Using Reverse Vaccinology and Machine Learning.

Published in:

Frontiers in Immunology, 2020, v. 11, p. 1, doi. 10.3389/fimmu.2020.01581

By:

Ong, Edison;
Wong, Mei U;
Huffman, Anthony;
He, Yongqun

Publication type:

Article

The RSVPreF3-AS01 vaccine elicits broad neutralization of contemporary and antigenically distant respiratory syncytial virus strains.

Published in:

Science Translational Medicine, 2023, v. 15, n. 710, p. 1, doi. 10.1126/scitranslmed.adg6050

By:

Sacconnay, Lionel;
De Smedt, Jonathan;
Rocha-Perugini, Vera;
Ong, Edison;
Mascolo, Romuald;
Atas, Anne;
Vanden Abeele, Carline;
de Heusch, Magali;
De Schrevel, Nathalie;
David, Marie-Pierre;
Bouzya, Badiaa;
Stobbelaar, Kim;
Vanloubbeeck, Yannick;
Delputte, Peter L.;
Mallett, Corey P.;
Dezutter, Nancy;
Warter, Lucile

Publication type:

Article

A new framework for hostpathogen interaction research.

Published in:

Frontiers in Immunology, 2022, v. 13, p. 1, doi. 10.3389/fimmu.2022.1066733

By:

Hong Yu;
Li Li;
Huffman, Anthony;
Beverley, John;
Hur, Junguk;
Merrell, Eric;
Hsin-hui Huang;
Yang Wang;
Yingtong Liu;
Ong, Edison;
Liang Cheng;
Tao Zeng;
Jingsong Zhang;
Pengpai Li;
Zhiping Liu;
Zhigang Wang;
Xiangyan Zhang;
Xianwei Ye;
Handelman, Samuel K.;
Sexton, Jonathan

Publication type:

Article

Improvement in the Analysis of Vaccine Adverse Event Reporting System Database.

Published in:

Statistics in Biopharmaceutical Research, 2020, v. 12, n. 3, p. 303, doi. 10.1080/19466315.2020.1764862

By:

Zhao, Lili;
Lee, Sunghun;
Li, Rongxia;
Ong, Edison;
He, Yongqun;
Freed, Gary

Publication type:

Article