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The design and implementation of the immune epitope database and analysis resource.
Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger SP, Stewart S, Surko P, Way S, Wilson S, Sette A. Peters B, et al. Among authors: ponomarenko jv. Immunogenetics. 2005 Jun;57(5):326-36. doi: 10.1007/s00251-005-0803-5. Epub 2005 May 14. Immunogenetics. 2005. PMID: 15895191 Free PMC article.
Curation of complex, context-dependent immunological data.
Vita R, Vaughan K, Zarebski L, Salimi N, Fleri W, Grey H, Sathiamurthy M, Mokili J, Bui HH, Bourne PE, Ponomarenko J, de Castro R Jr, Chan RK, Sidney J, Wilson SS, Stewart S, Way S, Peters B, Sette A. Vita R, et al. BMC Bioinformatics. 2006 Jul 12;7:341. doi: 10.1186/1471-2105-7-341. BMC Bioinformatics. 2006. PMID: 16836764 Free PMC article.
Immune epitope database analysis resource (IEDB-AR).
Zhang Q, Wang P, Kim Y, Haste-Andersen P, Beaver J, Bourne PE, Bui HH, Buus S, Frankild S, Greenbaum J, Lund O, Lundegaard C, Nielsen M, Ponomarenko J, Sette A, Zhu Z, Peters B. Zhang Q, et al. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W513-8. doi: 10.1093/nar/gkn254. Epub 2008 May 31. Nucleic Acids Res. 2008. PMID: 18515843 Free PMC article.
Immune epitope database analysis resource.
Kim Y, Ponomarenko J, Zhu Z, Tamang D, Wang P, Greenbaum J, Lundegaard C, Sette A, Lund O, Bourne PE, Nielsen M, Peters B. Kim Y, et al. Nucleic Acids Res. 2012 Jul;40(Web Server issue):W525-30. doi: 10.1093/nar/gks438. Epub 2012 May 18. Nucleic Acids Res. 2012. PMID: 22610854 Free PMC article.
The immune epitope database and analysis resource: from vision to blueprint.
Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger S, Stewart S, Surko P, Way S, Wilson S, Sette A. Peters B, et al. Among authors: ponomarenko jv. PLoS Biol. 2005 Mar;3(3):e91. doi: 10.1371/journal.pbio.0030091. PLoS Biol. 2005. PMID: 15760272 Free PMC article.
IEDB-3D: structural data within the immune epitope database.
Ponomarenko J, Papangelopoulos N, Zajonc DM, Peters B, Sette A, Bourne PE. Ponomarenko J, et al. Nucleic Acids Res. 2011 Jan;39(Database issue):D1164-70. doi: 10.1093/nar/gkq888. Epub 2010 Oct 28. Nucleic Acids Res. 2011. PMID: 21030437 Free PMC article.
The immune epitope database (IEDB) 3.0.
Vita R, Overton JA, Greenbaum JA, Ponomarenko J, Clark JD, Cantrell JR, Wheeler DK, Gabbard JL, Hix D, Sette A, Peters B. Vita R, et al. Nucleic Acids Res. 2015 Jan;43(Database issue):D405-12. doi: 10.1093/nar/gku938. Epub 2014 Oct 9. Nucleic Acids Res. 2015. PMID: 25300482 Free PMC article.
Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools.
Greenbaum JA, Andersen PH, Blythe M, Bui HH, Cachau RE, Crowe J, Davies M, Kolaskar AS, Lund O, Morrison S, Mumey B, Ofran Y, Pellequer JL, Pinilla C, Ponomarenko JV, Raghava GP, van Regenmortel MH, Roggen EL, Sette A, Schlessinger A, Sollner J, Zand M, Peters B. Greenbaum JA, et al. Among authors: ponomarenko jv. J Mol Recognit. 2007 Mar-Apr;20(2):75-82. doi: 10.1002/jmr.815. J Mol Recognit. 2007. PMID: 17205610 Review.
66 results