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Resources to Discover and Use Short Linear Motifs in Viral Proteins.
Hraber P, O'Maille PE, Silberfarb A, Davis-Anderson K, Generous N, McMahon BH, Fair JM. Hraber P, et al. Trends Biotechnol. 2020 Jan;38(1):113-127. doi: 10.1016/j.tibtech.2019.07.004. Epub 2019 Aug 16. Trends Biotechnol. 2020. PMID: 31427097 Free PMC article. Review.
Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing.
Fischer W, Ganusov VV, Giorgi EE, Hraber PT, Keele BF, Leitner T, Han CS, Gleasner CD, Green L, Lo CC, Nag A, Wallstrom TC, Wang S, McMichael AJ, Haynes BF, Hahn BH, Perelson AS, Borrow P, Shaw GM, Bhattacharya T, Korber BT. Fischer W, et al. Among authors: hraber pt. PLoS One. 2010 Aug 20;5(8):e12303. doi: 10.1371/journal.pone.0012303. PLoS One. 2010. PMID: 20808830 Free PMC article.
Recurrent signature patterns in HIV-1 B clade envelope glycoproteins associated with either early or chronic infections.
Gnanakaran S, Bhattacharya T, Daniels M, Keele BF, Hraber PT, Lapedes AS, Shen T, Gaschen B, Krishnamoorthy M, Li H, Decker JM, Salazar-Gonzalez JF, Wang S, Jiang C, Gao F, Swanstrom R, Anderson JA, Ping LH, Cohen MS, Markowitz M, Goepfert PA, Saag MS, Eron JJ, Hicks CB, Blattner WA, Tomaras GD, Asmal M, Letvin NL, Gilbert PB, Decamp AC, Magaret CA, Schief WR, Ban YE, Zhang M, Soderberg KA, Sodroski JG, Haynes BF, Shaw GM, Hahn BH, Korber B. Gnanakaran S, et al. PLoS Pathog. 2011 Sep;7(9):e1002209. doi: 10.1371/journal.ppat.1002209. Epub 2011 Sep 29. PLoS Pathog. 2011. PMID: 21980282 Free PMC article. Clinical Trial.
Epitope-specific CD8+ T lymphocytes cross-recognize mutant simian immunodeficiency virus (SIV) sequences but fail to contain very early evolution and eventual fixation of epitope escape mutations during SIV infection.
Cale EM, Hraber P, Giorgi EE, Fischer W, Bhattacharya T, Leitner T, Yeh WW, Gleasner C, Green LD, Han CS, Korber B, Letvin NL. Cale EM, et al. Among authors: hraber p. J Virol. 2011 Apr;85(8):3746-57. doi: 10.1128/JVI.02420-10. Epub 2011 Feb 9. J Virol. 2011. PMID: 21307185 Free PMC article.
HIV-1 Neutralizing Antibody Signatures and Application to Epitope-Targeted Vaccine Design.
Bricault CA, Yusim K, Seaman MS, Yoon H, Theiler J, Giorgi EE, Wagh K, Theiler M, Hraber P, Macke JP, Kreider EF, Learn GH, Hahn BH, Scheid JF, Kovacs JM, Shields JL, Lavine CL, Ghantous F, Rist M, Bayne MG, Neubauer GH, McMahan K, Peng H, Chéneau C, Jones JJ, Zeng J, Ochsenbauer C, Nkolola JP, Stephenson KE, Chen B, Gnanakaran S, Bonsignori M, Williams LD, Haynes BF, Doria-Rose N, Mascola JR, Montefiori DC, Barouch DH, Korber B. Bricault CA, et al. Among authors: hraber p. Cell Host Microbe. 2019 Jan 9;25(1):59-72.e8. doi: 10.1016/j.chom.2018.12.001. Cell Host Microbe. 2019. PMID: 30629920 Free PMC article.
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