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For: Yin R, Tran VH, Zhou X, Zheng J, Kwoh CK. Predicting antigenic variants of H1N1 influenza virus based on epidemics and pandemics using a stacking model. PLoS One 2018;13:e0207777. [PMID: 30576319 DOI: 10.1371/journal.pone.0207777] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2018] [Accepted: 11/06/2018] [Indexed: 11/26/2022]  Open
Number Cited by Other Article(s)
1
Yin R, Gutierrez A, Undiagnosed Diseases Network, Kobren SN, Avillach P. VarPPUD: Variant post prioritization developed for undiagnosed genetic disorders. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.04.15.24305876. [PMID: 38699371 PMCID: PMC11065012 DOI: 10.1101/2024.04.15.24305876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2024]
2
Yin R, Ye B, Bian J. CLCAP: Contrastive learning improves antigenicity prediction for influenza A virus using convolutional neural networks. Methods 2023;220:S1046-2023(23)00180-9. [PMID: 39491098 DOI: 10.1016/j.ymeth.2023.10.010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 10/05/2023] [Accepted: 10/23/2023] [Indexed: 11/05/2024]  Open
3
Ding P, Zeng M, Yin R. Editorial: Computational methods to analyze RNA data for human diseases. Front Genet 2023;14:1270334. [PMID: 37674479 PMCID: PMC10478215 DOI: 10.3389/fgene.2023.1270334] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 08/14/2023] [Indexed: 09/08/2023]  Open
4
Liu M, Liu J, Song W, Peng Y, Ding X, Deng L, Jiang T. Development of PREDAC-H1pdm to model the antigenic evolution of influenza A/(H1N1) pdm09 viruses. Virol Sin 2023;38:541-548. [PMID: 37211247 PMCID: PMC10436056 DOI: 10.1016/j.virs.2023.05.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Accepted: 05/17/2023] [Indexed: 05/23/2023]  Open
5
Ren H, Ling Y, Cao R, Wang Z, Li Y, Huang T. Early warning of emerging infectious diseases based on multimodal data. BIOSAFETY AND HEALTH 2023;5:S2590-0536(23)00074-5. [PMID: 37362865 PMCID: PMC10245235 DOI: 10.1016/j.bsheal.2023.05.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 05/18/2023] [Accepted: 05/31/2023] [Indexed: 06/28/2023]  Open
6
Rashid S, Ng TA, Kwoh CK. Jupytope: computational extraction of structural properties of viral epitopes. Brief Bioinform 2022;23:6696137. [PMID: 36094101 DOI: 10.1093/bib/bbac362] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 07/29/2022] [Accepted: 08/02/2022] [Indexed: 12/14/2022]  Open
7
Yin R, Thwin NN, Zhuang P, Lin Z, Kwoh CK. IAV-CNN: A 2D Convolutional Neural Network Model to Predict Antigenic Variants of Influenza A Virus. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2022;19:3497-3506. [PMID: 34469306 DOI: 10.1109/tcbb.2021.3108971] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
8
Feng Q, Huang XY, Feng YM, Sun LJ, Sun JY, Li Y, Xie X, Hu J, Guo CY. Identification and analysis of B cell epitopes of hemagglutinin of H1N1 influenza virus. Arch Microbiol 2022;204:594. [PMID: 36053375 PMCID: PMC9438888 DOI: 10.1007/s00203-022-03133-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Revised: 07/06/2022] [Accepted: 07/10/2022] [Indexed: 11/27/2022]
9
Shin Y, Kim J, Seok JH, Park H, Cha HR, Ko SH, Lee JM, Park MS, Park JH. Development of the H3N2 influenza microneedle vaccine for cross-protection against antigenic variants. Sci Rep 2022;12:12189. [PMID: 35842468 PMCID: PMC9287697 DOI: 10.1038/s41598-022-16365-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Accepted: 07/08/2022] [Indexed: 11/25/2022]  Open
10
Bi L, Fili M, Hu G. COVID-19 forecasting and intervention planning using gated recurrent unit and evolutionary algorithm. Neural Comput Appl 2022;34:17561-17579. [PMID: 35669538 PMCID: PMC9153241 DOI: 10.1007/s00521-022-07394-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Accepted: 05/03/2022] [Indexed: 11/25/2022]
11
Wang Y, Tang CY, Wan XF. Antigenic characterization of influenza and SARS-CoV-2 viruses. Anal Bioanal Chem 2022;414:2841-2881. [PMID: 34905077 PMCID: PMC8669429 DOI: 10.1007/s00216-021-03806-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 11/21/2021] [Accepted: 11/24/2021] [Indexed: 12/24/2022]
12
Abbas ME, Chengzhang Z, Fathalla A, Xiao Y. End-to-end antigenic variant generation for H1N1 influenza HA protein using sequence to sequence models. PLoS One 2022;17:e0266198. [PMID: 35344562 PMCID: PMC8959165 DOI: 10.1371/journal.pone.0266198] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Accepted: 03/16/2022] [Indexed: 11/23/2022]  Open
13
Gan SKE, Phua SX, Yeo JY. Sagacious epitope selection for vaccines, and both antibody-based therapeutics and diagnostics: tips from virology and oncology. Antib Ther 2022;5:63-72. [PMID: 35372784 PMCID: PMC8972324 DOI: 10.1093/abt/tbac005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Revised: 01/24/2022] [Accepted: 02/12/2022] [Indexed: 11/12/2022]  Open
14
Gradisteanu Pircalabioru G, Iliescu FS, Mihaescu G, Cucu AI, Ionescu ON, Popescu M, Simion M, Burlibasa L, Tica M, Chifiriuc MC, Iliescu C. Advances in the Rapid Diagnostic of Viral Respiratory Tract Infections. Front Cell Infect Microbiol 2022;12:807253. [PMID: 35252028 PMCID: PMC8895598 DOI: 10.3389/fcimb.2022.807253] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2021] [Accepted: 01/04/2022] [Indexed: 12/16/2022]  Open
15
Yin R, Luo Z, Kwoh CK. Exploring the Lethality of Human-Adapted Coronavirus Through Alignment-Free Machine Learning Approaches Using Genomic Sequences. Curr Genomics 2021;22:583-595. [PMID: 35386190 PMCID: PMC8922323 DOI: 10.2174/1389202923666211221110857] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Revised: 12/02/2021] [Accepted: 12/14/2021] [Indexed: 11/29/2022]  Open
16
Kwon EB, Oh YC, Hwang YH, Li W, Park SM, Kong R, Kim YS, Choi JG. A Herbal Mixture Formula of OCD20015-V009 Prophylactic Administration to Enhance Interferon-Mediated Antiviral Activity Against Influenza A Virus. Front Pharmacol 2021;12:764297. [PMID: 34899320 PMCID: PMC8651992 DOI: 10.3389/fphar.2021.764297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 10/29/2021] [Indexed: 11/15/2022]  Open
17
Yeo JY, Gan SKE. Peering into Avian Influenza A(H5N8) for a Framework towards Pandemic Preparedness. Viruses 2021;13:2276. [PMID: 34835082 PMCID: PMC8622263 DOI: 10.3390/v13112276] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Revised: 10/20/2021] [Accepted: 11/12/2021] [Indexed: 12/13/2022]  Open
18
Chamola V, Hassija V, Gupta S, Goyal A, Guizani M, Sikdar B. Disaster and Pandemic Management Using Machine Learning: A Survey. IEEE INTERNET OF THINGS JOURNAL 2021;8:16047-16071. [PMID: 35782181 PMCID: PMC8768997 DOI: 10.1109/jiot.2020.3044966] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 11/26/2020] [Accepted: 12/10/2020] [Indexed: 05/14/2023]
19
COVID-19 Outbreak Prediction with Machine Learning. ALGORITHMS 2020. [DOI: 10.3390/a13100249] [Citation(s) in RCA: 99] [Impact Index Per Article: 19.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
20
Behnood A, Mohammadi Golafshani E, Hosseini SM. Determinants of the infection rate of the COVID-19 in the U.S. using ANFIS and virus optimization algorithm (VOA). CHAOS, SOLITONS, AND FRACTALS 2020;139:110051. [PMID: 32834605 PMCID: PMC7315966 DOI: 10.1016/j.chaos.2020.110051] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Accepted: 06/23/2020] [Indexed: 05/04/2023]
21
Enhanced Gaussian process regression-based forecasting model for COVID-19 outbreak and significance of IoT for its detection. APPL INTELL 2020;51:1492-1512. [PMID: 34764576 PMCID: PMC7785924 DOI: 10.1007/s10489-020-01889-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
22
Jiang Y, Cai X, Yao J, Guo H, Yin L, Leung W, Xu C. Role of Extracellular Vesicles in Influenza Virus Infection. Front Cell Infect Microbiol 2020;10:366. [PMID: 32850473 PMCID: PMC7396637 DOI: 10.3389/fcimb.2020.00366] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Accepted: 06/15/2020] [Indexed: 12/17/2022]  Open
23
COVID-19 Pandemic Prediction for Hungary; A Hybrid Machine Learning Approach. MATHEMATICS 2020. [DOI: 10.3390/math8060890] [Citation(s) in RCA: 101] [Impact Index Per Article: 20.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
24
Degoot AM, Adabor ES, Chirove F, Ndifon W. Predicting Antigenicity of Influenza A Viruses Using biophysical ideas. Sci Rep 2019;9:10218. [PMID: 31308446 PMCID: PMC6629677 DOI: 10.1038/s41598-019-46740-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2018] [Accepted: 07/01/2019] [Indexed: 11/18/2022]  Open
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