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For: Koo QY, Khan AM, Jung KO, Ramdas S, Miotto O, Tan TW, Brusic V, Salmon J, August JT. Conservation and variability of West Nile virus proteins. PLoS One 2009;4:e5352. [PMID: 19401763 PMCID: PMC2670515 DOI: 10.1371/journal.pone.0005352] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2009] [Accepted: 03/10/2009] [Indexed: 12/02/2022]  Open
Number Cited by Other Article(s)
1
Chong LC, Khan AM. A Systematic Bioinformatics Approach for Mapping the Minimal Set of a Viral Peptidome. Curr Protoc 2024;4:e1056. [PMID: 38856995 DOI: 10.1002/cpz1.1056] [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] [Indexed: 06/11/2024]
2
Praveen M. Characterizing the West Nile Virus's polyprotein from nucleotide sequence to protein structure - Computational tools. J Taibah Univ Med Sci 2024;19:338-350. [PMID: 38304694 PMCID: PMC10831166 DOI: 10.1016/j.jtumed.2024.01.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2023] [Revised: 11/27/2023] [Accepted: 01/08/2024] [Indexed: 02/03/2024]  Open
3
James SA, Ong HS, Hari R, Khan AM. A systematic bioinformatics approach for large-scale identification and characterization of host-pathogen shared sequences. BMC Genomics 2021;22:700. [PMID: 34583643 PMCID: PMC8477458 DOI: 10.1186/s12864-021-07657-4] [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: 03/14/2021] [Accepted: 04/28/2021] [Indexed: 11/10/2022]  Open
4
Chong LC, Lim WL, Ban KHK, Khan AM. An Alignment-Independent Approach for the Study of Viral Sequence Diversity at Any Given Rank of Taxonomy Lineage. BIOLOGY 2021;10:biology10090853. [PMID: 34571730 PMCID: PMC8466476 DOI: 10.3390/biology10090853] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Revised: 08/13/2021] [Accepted: 08/19/2021] [Indexed: 11/16/2022]
5
Avian Influenza H7N9 Virus Adaptation to Human Hosts. Viruses 2021;13:v13050871. [PMID: 34068495 PMCID: PMC8150935 DOI: 10.3390/v13050871] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 04/03/2021] [Accepted: 04/05/2021] [Indexed: 01/06/2023]  Open
6
Abd Raman HS, Tan S, August JT, Khan AM. Dynamics of Influenza A (H5N1) virus protein sequence diversity. PeerJ 2020;7:e7954. [PMID: 32518710 PMCID: PMC7261124 DOI: 10.7717/peerj.7954] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2019] [Accepted: 09/26/2019] [Indexed: 11/20/2022]  Open
7
West Nile Virus Vaccine Design by T Cell Epitope Selection: In Silico Analysis of Conservation, Functional Cross-Reactivity with the Human Genome, and Population Coverage. J Immunol Res 2020;2020:7235742. [PMID: 32258174 PMCID: PMC7106935 DOI: 10.1155/2020/7235742] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2019] [Accepted: 12/05/2019] [Indexed: 12/22/2022]  Open
8
Chong LC, Khan AM. Identification of highly conserved, serotype-specific dengue virus sequences: implications for vaccine design. BMC Genomics 2019;20:921. [PMID: 31874646 PMCID: PMC6929274 DOI: 10.1186/s12864-019-6311-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Accepted: 11/19/2019] [Indexed: 11/24/2022]  Open
9
Chong LC, Khan AM. Vaccine Target Discovery. ENCYCLOPEDIA OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY 2019. [PMCID: PMC7148608 DOI: 10.1016/b978-0-12-809633-8.20100-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
10
Tripathi NK, Karothia D, Shrivastava A, Banger S, Kumar JS. Enhanced production and immunological characterization of recombinant West Nile virus envelope domain III protein. N Biotechnol 2018;46:7-13. [PMID: 29768182 DOI: 10.1016/j.nbt.2018.05.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Revised: 05/04/2018] [Accepted: 05/06/2018] [Indexed: 12/18/2022]
11
Mapping HLA-A2, -A3 and -B7 supertype-restricted T-cell epitopes in the ebolavirus proteome. BMC Genomics 2018;19:42. [PMID: 29363421 PMCID: PMC5780746 DOI: 10.1186/s12864-017-4328-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]  Open
12
Khan AM, Hu Y, Miotto O, Thevasagayam NM, Sukumaran R, Abd Raman HS, Brusic V, Tan TW, Thomas August J. Analysis of viral diversity for vaccine target discovery. BMC Med Genomics 2017;10:78. [PMID: 29322922 PMCID: PMC5763473 DOI: 10.1186/s12920-017-0301-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
13
T cell epitope mapping of the e-protein of West Nile virus in BALB/c mice. PLoS One 2014;9:e115343. [PMID: 25506689 PMCID: PMC4266646 DOI: 10.1371/journal.pone.0115343] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2014] [Accepted: 11/21/2014] [Indexed: 11/29/2022]  Open
14
Langevin SA, Bowen RA, Reisen WK, Andrade CC, Ramey WN, Maharaj PD, Anishchenko M, Kenney JL, Duggal NK, Romo H, Bera AK, Sanders TA, Bosco-Lauth A, Smith JL, Kuhn R, Brault AC. Host competence and helicase activity differences exhibited by West Nile viral variants expressing NS3-249 amino acid polymorphisms. PLoS One 2014;9:e100802. [PMID: 24971589 PMCID: PMC4074097 DOI: 10.1371/journal.pone.0100802] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2014] [Accepted: 05/14/2014] [Indexed: 01/27/2023]  Open
15
Hu Y, Tan PT, Tan TW, August JT, Khan AM. Dissecting the dynamics of HIV-1 protein sequence diversity. PLoS One 2013;8:e59994. [PMID: 23593157 PMCID: PMC3617185 DOI: 10.1371/journal.pone.0059994] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2012] [Accepted: 02/21/2013] [Indexed: 12/22/2022]  Open
16
Yang CW. A comparative study of short linear motif compositions of the influenza A virus ribonucleoproteins. PLoS One 2012;7:e38637. [PMID: 22715401 PMCID: PMC3371030 DOI: 10.1371/journal.pone.0038637] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2012] [Accepted: 05/08/2012] [Indexed: 11/19/2022]  Open
17
West Nile virus T-cell ligand sequences shared with other flaviviruses: a multitude of variant sequences as potential altered peptide ligands. J Virol 2012;86:7616-24. [PMID: 22573867 DOI: 10.1128/jvi.00166-12] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]  Open
18
Olsen LR, Zhang GL, Keskin DB, Reinherz EL, Brusic V. Conservation analysis of dengue virus T-cell epitope-based vaccine candidates using Peptide block entropy. Front Immunol 2011;2:69. [PMID: 22566858 PMCID: PMC3341948 DOI: 10.3389/fimmu.2011.00069] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2011] [Accepted: 11/14/2011] [Indexed: 01/02/2023]  Open
19
Tong JC, Ng LFP. Understanding infectious agents from an in silico perspective. Drug Discov Today 2010;16:42-9. [PMID: 20974283 PMCID: PMC7185741 DOI: 10.1016/j.drudis.2010.10.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2010] [Revised: 10/01/2010] [Accepted: 10/18/2010] [Indexed: 12/31/2022]
20
Larsen MV, Lelic A, Parsons R, Nielsen M, Hoof I, Lamberth K, Loeb MB, Buus S, Bramson J, Lund O. Identification of CD8+ T cell epitopes in the West Nile virus polyprotein by reverse-immunology using NetCTL. PLoS One 2010;5:e12697. [PMID: 20856867 PMCID: PMC2939062 DOI: 10.1371/journal.pone.0012697] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2010] [Accepted: 08/21/2010] [Indexed: 11/19/2022]  Open
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