Publications - 2008


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  1. Binley JM, Lybarger EA, Crooks ET, Seaman MS, Gray E, Davis KL, Decker JM, Wycuff D, Harris L, Hawkins N, Wood B, Nathe C, Richman D, Tomaras GD, Bibollet-Ruche F, Robinson JE, Morris L, Shaw GM, Montefiori DC, Mascola JR.  Profiling the specificity of neutralizing antibodies in a large panel of plasmas from patients chronically infected with human immunodeficiency virus type 1 subtypes B and C. J Virol. 2008 Dec. 82(23):11651-68. Epub 2008 Sep 24. Abstract
  2. Lin J-W, Hao L-X, Xu G-X, Sun F, Gao F, Zhang R and Liu L-X. Molecular cloning and recombinant expression of a gene encoding a fungal immunomodulatory protein from Ganoderma lucidum in Pichia pastoris. World J Microbiol Biotechnol. Nov. 12, 2008, epublished ahead of print. Abstract
  3. Spearman P, Kalams S, Elizaga M, Metch B, Chiu YL, Allen M, Weinhold KJ, Ferrari G, Parker SD, McElrath MJ, Frey SE, Fuchs JD, Keefer MC, Lubeck MD, Egan M, Braun R, Eldridge JH, Haynes BF, Corey L; the NIAID HIV Vaccine Trials Network. Safety and immunogenicity of a CTL multiepitope peptide vaccine for HIV with or without GM-CSF in a phase I trial. Vaccine. 2008 Nov 7. [Epub ahead of print] Abstract
  4. Barnett D, Walker B, Landay AL, Denny TN. CD4 immunophenotyping in HIV infection. Nature Reviews Microbiology. 2008 November. (6)11: S7-S15. AbstractTomaras GD, Yates NL, Liu P, Qin L, Fouda GG, Chavez LL, Decamp AC, Parks RJ, Ashley VC, Lucas JT, Cohen M, Eron J, Hicks CB, Liao HX, Self SG, Landucci G, Forthal DN, Weinhold KJ, Keele BF, Hahn BH, Greenberg ML, Morris L, Karim SS, Blattner WA, Montefiori DC, Shaw GM, Perelson AS, Haynes BF. Initial B Cell Responses to Transmitted HIV-1: Virion-Binding IgM and IgG Antibodies Followed by Plasma Anti-gp41 Antibodies with Ineffective Control of Initial Viremia. J Virol. 2008 Oct 8. [Epub ahead of print] Abstract
  5. Page KM, Mendizabal AM, Prasad VK, Martin PL, Parikh S, Wood S, Sempowski GD, Szabolcs P, Kurtzberg J. Posttransplant autoimmune hemolytic anemia and other autoimmune cytopenias are increased in very young infants undergoing unrelated donor umbilical cord blood transplantation. Biol Blood Marrow Transplant. 2008 Oct. 14(10):1108-17. Abstract
  6. Gruver AL, Sempowski GD. Cytokines, leptin, and stress-induced thymic atrophy. J Leukoc Biol. 2008 Oct. 84(4):915-23. Abstract
  7. Roederer M, Moody MA. Polychromatic plots: graphical display of multidimensional data. Cytometry A. 2008 Sep. 73(9):868-74. Abstract
  8. Barefoot B, Thornburg NJ, Barouch DH, Yu JS, Sample C, Johnston RE, Liao HX, Kepler TB, Haynes BF, Ramsburg E. Comparison of multiple vaccine vectors in a single heterologous prime-boost trial. Vaccine. 2008 Sep 20. [Epub ahead of print] Abstract
  9. Binley JM, Lybarger EA, Crooks ET, Seaman MS, Gray E, Davis KL, Decker JM, Wycuff D, Harris L, Hawkins N, Wood B, Nathe C, Richman D, Tomaras GD, Bibollet-Ruche F, Robinson JE, Morris L, Shaw GM, Montefiori DC, Mascola JR. Profiling the Specificity of Neutralizing Antibodies in a Large Panel of HIV-1 Plasmas from Subtype B and C Chronic Infections. J Virol. 2008 Sep 24. [Epub ahead of print] Abstract
  10. Sales AP, Tomaras GD, Kepler TB. Improving peptide-MHC class I binding prediction for unbalanced datasets. BMC Bioinformatics. 2008 Sep 19. 9(1):385. [Epub ahead of print] AbstractQiu L, Huang D, Chen CY, Wang R, Shen L, Shen Y, Hunt R, Estep J, Haynes BF, Jacobs Jr WR, Letvin NL, Du G, Chen ZW. Severe Tuberculosis Induces Unbalanced Up-Regulation of Gene Networks and Overexpression of IL-22, MIP-1alpha, CCL27, IP-10, CCR4, CCR5, CXCR3, PD1, PDL2, IL-3, IFN-beta, TIM1, and TLR2 but Low Antigen-Specific Cellular Responses. J Infect Dis. 2008 Sep 23. Abstract
  11. Santra S, Korber BT, Muldoon M, Barouch DH, Nabel GJ, Gao F, Hahn BH, Haynes BF, Letvin NL. A centralized gene-based HIV-1 vaccine elicits broad cross-clade cellular immune responses in rhesus monkeys. Proc Natl Acad Sci U S A. 2008 Jul 29. 105(30):10489-94. Abstract
  12. Howard BA, Sempowski GD, Scearce RM, Liao HX, Lee DM, Lam GK, Chen H, Fadden P, Haystead T, Haynes BF. Murine CD7 shares antigenic cross-reactivity with HSP-60. Hybridoma (Larchmt). 2008 Apr. 27(2):81-9. Abstract
  13. Moody MA, Haynes BF. Antigen-specific B cell detection reagents: Use and quality control. Cytometry A. 2008 Jul 8. Abstract
  14. Irungu J, Go EP, Zhang Y, Dalpathado DS, Liao HX, Haynes BF, Desaire H. Comparison of HPLC/ESI-FTICR MS versus MALDI-TOF/TOF MS for glycopeptide analysis of a highly glycosylated HIV envelope glycoprotein. J Am Soc Mass Spectrom. 2008 Aug. 19(8):1209-20. Abstract
  15. Gasper-Smith N, Crossman DM, Whitesides JF, Mensali N, Ottinger JS, Plonk SG, Moody MA, Ferrari G, Weinhold KJ, Miller SE, Reich CF 3rd, Qin L, Self SG, Shaw GM, Denny TN, Jones LE, Pisetsky DS, Haynes BF. Induction of plasma (TRAIL), TNFR-2, Fas ligand, and plasma microparticles after human immunodeficiency virus type 1 (HIV-1) transmission: implications for HIV-1 vaccine design. J Virol. 2008 Aug. 82(15):7700-10. Abstract
  16. Merson M, Denny TN. The global health and diagnostic (flow) cytometry--breakthroughs in HIV and tuberculosis. Cytometry B Clin Cytom. 2008. 74 Suppl 1:S4-5. No abstract available. Abstract
  17. Denny TN, Gelman R, Bergeron M, Landay A, Lam L, Louzao R, Mandy FF, Schmitz J, Spira T, Wilkening C, Glencross DK; NIAID-DAIDS Immunology Quality Assessment Program. A North American multilaboratory study of CD4 counts using flow cytometric panLeukogating (PLG): a NIAID-DAIDS Immunology Quality Assessment Program Study. Cytometry B Clin Cytom. 2008. 74 Suppl 1:S52-64. Abstract
  18. Stout JE, Hopkins GW, McDonald JR, Quinn A, Hamilton CD, Reller LB, Frothingham R. Association between 16S-23S internal transcribed spacer sequence groups of Mycobacterium avium complex and pulmonary disease. J Clin Microbiol. 2008 Aug. 46(8):2790-3. Epub 2008 Jun 11. Abstract
  19. Bifani P, Mathema B, Kurepina N, Shashkina E, Bertout J, Blanchis AS, Moghazeh S, Driscoll J, Gicquel B, Frothingham R, Kreiswirth BN. The evolution of drug resistance in Mycobacterium tuberculosis: from a mono-rifampin-resistant cluster into increasingly multidrug-resistant variants in an HIV-seropositive population. J Infect Dis. 2008 Jul 1. 198(1):90-4. Abstract
  20. Zhang MY, Vu BK, Choudhary A, Lu H, Humbert M, Ong H, Alam M, Ruprecht RM, Quinnan G, Jiang S, Montefiori DC, Mascola JR, Broder CC, Haynes BF, Dimitrov DS. Cross-reactive human immunodeficiency virus type 1-neutralizing human monoclonal antibody that recognizes a novel conformational epitope on gp41 and lacks reactivity against self-antigens. J Virol. 2008 Jul. 82(14):6869-79. Abstract
  21. Haynes BF, Shattock RJ. Critical issues in mucosal immunity for HIV-1 vaccine development. J Allergy Clin Immunol. 2008 Jul. 122(1):3-9; quiz 10-1. Abstract 
  22. Keele BF, Giorgi EE, Salazar-Gonzalez JF, Decker JM, Pham KT, Salazar MG, Sun C, Grayson T, Wang S, Li H, Wei X, Jiang C, Kirchherr JL, Gao F, Anderson JA, Ping LH, Swanstrom R, Tomaras GD, Blattner WA, Goepfert PA, Kilby JM, Saag MS, Delwart EL, Busch MP, Cohen MS, Montefiori DC, Haynes BF, Gaschen B, Athreya GS, Lee HY, Wood N, Seoighe C, Perelson AS, Bhattacharya T, Korber BT, Hahn BH, Shaw GM. Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Proc Natl Acad Sci U S A. 2008 May 27. 105(21):7552-7. Abstract
  23. Shattock RJ, Haynes BF, Pulendran B, Flores J, Esparza J; Working Group convened by the Global HIV Vaccine Enterprise. Improving defences at the portal of HIV entry: mucosal and innate immunity. PLoS Med. 2008 Apr 1. 5(4):e81. No abstract available.
  24. Go EP, Irungu J, Zhang Y, Dalpathado DS, Liao HX, Sutherland LL, Alam SM, Haynes BF, Desaire H. Glycosylation site-specific analysis of HIV envelope proteins (JR-FL and CON-S) reveals major differences in glycosylation site occupancy, glycoform profiles, and antigenic epitopes' accessibility. J Proteome Res. 2008 Apr. 7(4):1660-74. Abstract
  25. Salazar-Gonzalez JF, Bailes E, Pham KT, Salazar MG, Guffey MB, Keele BF, Derdeyn CA, Farmer P, Hunter E, Allen S, Manigart O, Mulenga J, Anderson JA, Swanstrom R, Haynes BF, Athreya GS, Korber BT, Sharp PM, Shaw GM, Hahn BH. Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing. J Virol. 2008 Apr. 82(8):3952-70. Abstract
  26. Fischer W, Liao HX, Haynes BF, Letvin NL, Korber B. Coping with viral diversity in HIV vaccine design: a response to Nickle et al. PLoS Comput Biol. 2008 Jan. 4(1):e15; author reply e25. No abstract available.
  27. Haynes BF, Alam SM. HIV-1 hides an Achilles' heel in virion lipids. Immunity. 2008 Jan. 28(1):10-2. Abstract
  28. Gao F, Liao HX, Hahn BH, Letvin NL, Korber BT, Haynes BF. Centralized HIV-1 envelope immunogens and neutralizing antibodies. Curr HIV Res. 2007 Nov. 5(6):572-7. Review. Abstract
  29. Hudson LL, Louise Markert M, Devlin BH, Haynes BF, Sempowski GD. Human T cell reconstitution in DiGeorge syndrome and HIV-1 infection. Semin Immunol. 2007 Oct. 19(5):297-309. Review. Abstract
  30. Alam SM, Scearce RM, Parks RJ, Plonk K, Plonk SG, Sutherland LL, Gorny MK, Zolla-Pazner S, Vanleeuwen S, Moody MA, Xia SM, Montefiori DC, Tomaras GD, Weinhold KJ, Karim SA, Hicks CB, Liao HX, Robinson J, Shaw GM, Haynes BF. Human immunodeficiency virus type 1 gp41 antibodies that mask membrane proximal region epitopes: antibody binding kinetics, induction, and potential for regulation in acute infection. J Virol. 2008 Jan. 82(1):115-25. Abstract
  31. Huang D, Shen Y, Qiu L, Chen CY, Shen L, Estep J, Hunt R, Vasconcelos D, Du G, Aye P, Lackner AA, Larsen MH, Jacobs WR Jr, Haynes BF, Letvin NL, Chen ZW. Immune distribution and localization of phosphoantigen-specific Vgamma2Vdelta2 T cells in lymphoid and nonlymphoid tissues in Mycobacterium tuberculosis infection. Infect Immun. 2008 Jan. 76(1):426-36. Abstract