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POPISK: T-cell reactivity prediction using support vector machines and string kernels.

Tung CW, Ziehm M, Kämper A, Kohlbacher O, Ho SY.

BMC Bioinformatics. 2011 Nov 15;12:446. doi: 10.1186/1471-2105-12-446.


The virology, epidemiology, and clinical impact of West Nile virus: a decade of advancements in research since its introduction into the Western Hemisphere.

Murray KO, Walker C, Gould E.

Epidemiol Infect. 2011 Jun;139(6):807-17. doi: 10.1017/S0950268811000185. Epub 2011 Feb 23.


Development of antigen-specific memory CD8+ T cells following live-attenuated chimeric West Nile virus vaccination.

Smith HL, Monath TP, Pazoles P, Rothman AL, Casey DM, Terajima M, Ennis FA, Guirakhoo F, Green S.

J Infect Dis. 2011 Feb 15;203(4):513-22. doi: 10.1093/infdis/jiq074. Epub 2011 Jan 7.


Identification of CD8+ T cell epitopes in the West Nile virus polyprotein by reverse-immunology using NetCTL.

Larsen MV, Lelic A, Parsons R, Nielsen M, Hoof I, Lamberth K, Loeb MB, Buus S, Bramson J, Lund O.

PLoS One. 2010 Sep 14;5(9):e12697. doi: 10.1371/journal.pone.0012697.


Major histocompatibility complex class I binding predictions as a tool in epitope discovery.

Lundegaard C, Lund O, Buus S, Nielsen M.

Immunology. 2010 Jul;130(3):309-18. doi: 10.1111/j.1365-2567.2010.03300.x. Epub 2010 May 26. Review.


Constraints within major histocompatibility complex class I restricted peptides: presentation and consequences for T-cell recognition.

Theodossis A, Guillonneau C, Welland A, Ely LK, Clements CS, Williamson NA, Webb AI, Wilce JA, Mulder RJ, Dunstone MA, Doherty PC, McCluskey J, Purcell AW, Turner SJ, Rossjohn J.

Proc Natl Acad Sci U S A. 2010 Mar 23;107(12):5534-9. doi: 10.1073/pnas.1000032107. Epub 2010 Mar 8.


Cellular immunology of sequential dengue virus infection and its role in disease pathogenesis.

Rothman AL.

Curr Top Microbiol Immunol. 2010;338:83-98. doi: 10.1007/978-3-642-02215-9_7. Review.


Mechanisms of costimulation.

Sharpe AH.

Immunol Rev. 2009 May;229(1):5-11. doi: 10.1111/j.1600-065X.2009.00784.x. Review. No abstract available.


Conservation and variability of West Nile virus proteins.

Koo QY, Khan AM, Jung KO, Ramdas S, Miotto O, Tan TW, Brusic V, Salmon J, August JT.

PLoS One. 2009;4(4):e5352. doi: 10.1371/journal.pone.0005352. Epub 2009 Apr 29.


The host immunologic response to West Nile encephalitis virus.

Diamond MS, Mehlhop E, Oliphant T, Samuel MA.

Front Biosci (Landmark Ed). 2009 Jan 1;14:3024-34. Review.


Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research.

Lin HH, Zhang GL, Tongchusak S, Reinherz EL, Brusic V.

BMC Bioinformatics. 2008 Dec 12;9 Suppl 12:S22. doi: 10.1186/1471-2105-9-S12-S22.


The good, the bad and the ugly: how altered peptide ligands modulate immunity.

Katsara M, Minigo G, Plebanski M, Apostolopoulos V.

Expert Opin Biol Ther. 2008 Dec;8(12):1873-84. doi: 10.1517/14712590802494501 . Review.


Understanding the contribution of cellular immunity to dengue disease pathogenesis.

Mathew A, Rothman AL.

Immunol Rev. 2008 Oct;225:300-13. doi: 10.1111/j.1600-065X.2008.00678.x. Review.


Conservation and variability of dengue virus proteins: implications for vaccine design.

Khan AM, Miotto O, Nascimento EJ, Srinivasan KN, Heiny AT, Zhang GL, Marques ET, Tan TW, Brusic V, Salmon J, August JT.

PLoS Negl Trop Dis. 2008 Aug 13;2(8):e272. doi: 10.1371/journal.pntd.0000272.


The memory T cell response to West Nile virus in symptomatic humans following natural infection is not influenced by age and is dominated by a restricted set of CD8+ T cell epitopes.

Parsons R, Lelic A, Hayes L, Carter A, Marshall L, Evelegh C, Drebot M, Andonova M, McMurtrey C, Hildebrand W, Loeb MB, Bramson JL.

J Immunol. 2008 Jul 15;181(2):1563-72.


Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan.

Nielsen M, Lundegaard C, Blicher T, Peters B, Sette A, Justesen S, Buus S, Lund O.

PLoS Comput Biol. 2008 Jul 4;4(7):e1000107. doi: 10.1371/journal.pcbi.1000107.


NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11.

Lundegaard C, Lamberth K, Harndahl M, Buus S, Lund O, Nielsen M.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W509-12. doi: 10.1093/nar/gkn202. Epub 2008 May 7.


Comprehensive analysis of west nile virus-specific T cell responses in humans.

Lanteri MC, Heitman JW, Owen RE, Busch T, Gefter N, Kiely N, Kamel HT, Tobler LH, Busch MP, Norris PJ.

J Infect Dis. 2008 May 1;197(9):1296-306. doi: 10.1086/586898.


Preservation of a critical epitope core region is associated with the high degree of flaviviral cross-reactivity exhibited by a dengue-specific CD4+ T cell clone.

Moran E, Simmons C, Chau NV, Luhn K, Wills B, Phuong Dung N, Thao LTT, Hien TT, Farrar J, Rowland-Jones S, Dong T.

Eur J Immunol. 2008 Apr;38(4):1050-1057. doi: 10.1002/eji.200737699.


Evaluation of MHC class I peptide binding prediction servers: applications for vaccine research.

Lin HH, Ray S, Tongchusak S, Reinherz EL, Brusic V.

BMC Immunol. 2008 Mar 16;9:8. doi: 10.1186/1471-2172-9-8.

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