Designing the next generation of vaccines for global public health

OMICS A Journal of Integrative Biology

Volumn 15, Issue 9, 2011, Pages 545-566

  Bagnoli, Fabio ^a   Baudner, Barbara ^a   Mishra, Ravi P N ^a   Bartolini, Erika ^a   Fiaschi, Luigi ^a   Mariotti, Paolo ^a   Nardi Dei, Vincenzo ^a   Boucher, Phil ^a   Rappuoli, Rino ^a  

^a NOVARTIS VACCINES AND DIAGNOSTICS   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

VACCINE; VIRULENCE FACTOR;

BIOMICS; DRUG DESIGN; DRUG EFFICACY; DRUG FORMULATION; DRUG SAFETY; FUNCTIONAL GENOMICS; GENE EXPRESSION PROFILING; GENE SEQUENCE; GENOMICS; HUMAN; IMMUNOCOMPROMISED PATIENT; IMMUNOMICS; INFECTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN MICROARRAY; PROTEOMICS; REVIEW; TRANSCRIPTOMICS;

ADJUVANTS, IMMUNOLOGIC; ANIMALS; ANTIGENS; BIOMEDICAL RESEARCH; DRUG INDUSTRY; GENE EXPRESSION PROFILING; GENOMICS; HUMANS; MODELS, BIOLOGICAL; MODELS, MOLECULAR; PROTEOMICS; VACCINES; WORLD HEALTH;

EID: 80052695382     PISSN: 15362310     EISSN: 15578100     Source Type: Journal    
DOI: 10.1089/omi.2010.0127     Document Type: Review

References (215)

1. Abdel-Motal, U., Wang, S., Lu, S., Wigglesworth, K., and Galili, U. (2006). Increased immunogenicity of human immunodeficiency virus gp120 engineered to express Galalpha1- 3Galbeta1-4GlcNAc-R epitopes. J Virol 80, 6943-6951. (Pubitemid 44025193)
2. Aida, Y., and Pabst, M.J. (1990). Removal of endotoxin from protein solutions by phase separation using Triton X-114. J Immunol Methods 132, 191-195. (Pubitemid 20281877)
3. Altindis, E., Tefon, B.E., Yildirim, V., Ozcengiz, E., Becher, D., Hecker, M., et al. (2009). Immunoproteomic analysis of ordetella pertussis and identification of new immunogenic proteins. Vaccine 27, 542-548.
4. Amrein, K.E., Takacs, B., Stieger, M., Molnos, J., Flint, N.A., and Burn, P. (1995). Purification and characterization of recombinant human p50csk protein-tyrosine kinase from an Escherichia coli expression system overproducing the bacterial chaperones GroES and GroEL. Proc Natl Acad Sci USA 92, 1048-1052.
5. Anderson, R., Huang, Y., and Langley, J.M. (2010). Prospects for defined epitope vaccines for respiratory syncytial virus. Future Microbiol 5, 585-602.
6. Anspach, F.B., and Hilbeck, O. (1995). Removal of endotoxins by affinity sorbents. J Chromatogr A 711, 81-92.
7. Ariel, N., Zvi, A., Grosfeld, H., Gat, O., Inbar, Y., Velan, B., et al. (2002). Search for potential vaccine candidate open reading frames in the Bacillus anthracis virulence plasmid pXO1: in silico and in vitro screening. Infect Immun 70, 6817-6827. (Pubitemid 35387914)
8. Asif, A.R., Oellerich, M., Amstrong, V.W., Riemenschneider, B., Monod,M., and Reichard,U. (2006). Proteome of conidial surface associated proteins of Aspergillus fumigatus reflecting potential vaccine candidates and allergens. J Proteome Res 5, 954-962.
9. Babiuk, L.A. (1999). Broadening the approaches to developing more effective vaccines. Vaccine 17, 1587-1595. (Pubitemid 29138888)
10. Bagnoli, F., and Rappuoli, R. (2010). Vaccine Design: Innovative Approaches and Novel Strategies (Caister Academic Press, Norfolk, UK).
11. Bagnoli, F., Buti, L., Tompkins, L., Covacci, A., and Amieva, M.R. (2005). Helicobacter pylori CagA induces a transition from polarized to invasive phenotypes in MDCK cells. Proc Natl Acad Sci USA 102, 16339-16344. (Pubitemid 41688915)
12. Bambini, S., and Rappuoli, R. (2009). The use of genomics in microbial vaccine development. Drug Discov Today 14, 252-260.
13. Bartlam, M., Xu, Y., Rao, Z. (2007). Structural proteomics of the SARS coronavirus: a model response to emerging infectious diseases. J Struct Funct Genomics 8, 85-97. (Pubitemid 350276181)
14. Baums, C.G., and Valentin-Weigand, P. (2009). Surface-associated and secreted factors of Streptococcus suis in epidemiology, pathogenesis and vaccine development. Anim Health Res Rev 10, 65-83.
15. Beres, S.B., Sylva, G.L., Sturdevant, D.E., Granville, C.N., Liu, M., Ricklefs, S.M., et al. (2004). Genome-wide molecular dissection of serotype M3 group A Streptococcus strains causing two epidemics of invasive infections. Proc Natl Acad Sci USA 101, 11833-11838. (Pubitemid 39095380)
16. Bergman, N.H., Anderson, E.C., Swenson, E.E., Janes, B.K., Fisher, N., Niemeyer, M.M., et al. (2007). Transcriptional profiling of Bacillus anthracis during infection of host macrophages. Infect Immun 75, 3434-3444. (Pubitemid 47040944)
17. Bernardini, G., Braconi, D., Martelli, P, and Santucci, A. (2007). Postgenomics of Neisseria meningitidis for vaccines development. Expert Rev Proteomics 4, 667-677. (Pubitemid 47623435)
18. Bizebard, T., Gigant, B., Rigolet, P., Rasmussen, B., Diat, O., Bosecke, P., et al. (1995). Structure of influenza virus haemagglutinin complexed with a neutralizing antibody. Nature 376, 92-94.
19. Black, M., Trent, A., Tirrell, M., and Olive, C. (2010). Advances in the design and delivery of peptide subunit vaccines with a focus on toll-like receptor agonists. Expert Rev Vaccines 9, 157-173.
20. Bombaci, M., Grifantini, R., Mora, M., Reguzzi, V., Petracca, R., Meoni, E., et al. (2009). Protein array profiling of tic patient sera reveals a broad range and enhanced immune response against Group A Streptococcus antigens. PLoS One 4, e6332.
21. Brito, L.A., and Singh, M. (2011). Acceptable levels of endotoxin in vaccine formulations during preclinical research. J Pharm Sci 100, 34-37.
22. Bumann, D. (2010). Pathogen proteomes during infection: a basis for infection research and novel control strategies. J Proteomics 73, 2267-2276.
23. Camilli, A., and Mekalanos, J.J. (1995). Use of recombinase gene fusions to identify Vibrio cholerae genes induced during infection. Mol Microbiol 18, 671-683. (Pubitemid 26007677)
24. Cavanagh, D.R., Remarque, E.J., Sauerwein, R.W., Hermsen, C.C., and Luty, A.J. (2008). Influenza virosomes: a flu jab for malaria? Trends Parasitol 24, 382-385.
25. Charles, R.C., Harris, J.B., Chase, M.R., Lebrun, L.M., Sheikh, A., LaRocque, R.C., et al. (2009). Comparative proteomic analysis of the PhoP regulon in Salmonella enterica serovar Typhi versus Typhimurium. PLoS One 4, e6994.
26. Chaudhuri, R., Ahmed, S., Ansari, F.A., Singh, H.V., and Ramachandran, S. (2008). MalVac: database of malarial vaccine candidates. Malar J 7, 184.
27. Chen, L., Kwon, Y.D., Zhou, T., Wu, X., O'Dell, S., Cavacini, L., et al. (2009). Structural basis of immune evasion at the site of CD4 attachment on HIV-1 gp120. Science 326, 1123-1127.
28. Chitlaru, T., Gat, O., Grosfeld, H., Inbar, I., Gozlan, Y., Shafferman, A., et al. (2007). Identification of in vivo-expressed immunogenic proteins by serological proteome analysis of the Bacillus anthracis secretome. Infect Immun 75, 2841-2852. (Pubitemid 46870165)
29. Chong, C.E., Lim, B.S., Nathan, S., and Mohamed, R. (2006). In silico analysis of Burkholderia pseudomallei genome sequence for potential drug targets. In Silico Biol 6, 341-346. (Pubitemid 44430622)
30. Cockle, P.J., Gordon, S.V., Lalvani, A., Buddle, B.M., Hewinson, R.G., Vordermeier, H,M. (2002). Identification of novel Mycobacterium tuberculosis antigens with potential as diagnostic reagents or subunit vaccine candidates by comparative genomics. Infect Immun 70, 6996-7003. (Pubitemid 35387935)
31. Cordwell, S.J. (2006). Technologies for bacterial surface proteomics. Curr Opin Microbiol 9, 320-329. (Pubitemid 43817622)
32. Coulter, S.N., Schwan, W.R., Ng, E.Y., Langhorne, M.H., Ritchie, H.D., Westbrock-Wadman, S., et al. (1998). Staphylococcus aureus genetic loci impacting growth and survival in multiple infection environments. Mol Microbiol 30, 393-404. (Pubitemid 28480189)
33. Crasta, O.R., Folkerts, O., Fei, Z., Mane, S.P., Evans, C., Martino- Catt, S., et al. (2008). Genome sequence of Brucella abortus vaccine strain S19 compared to virulent strains yields candidate virulence genes. PLoS One 3, e2193.
34. Crompton, P.D., Kayala, M.A., Traore, B., Kayentao, K., Ongoiba, A., Weiss, G.E., et al. (2010). A prospective analysis of the Ab response to Plasmodium falciparum before and after a malaria season by protein microarray. Proc Natl Acad Sci USA 107, 6958-6963.
35. Cullen, P.A., Xu, X., Matsunaga, J., Sanchez, Y., Ko, A.I., Haake, D.A., et al. (2005). Surfaceome of Leptospira spp. Infect Immun 73, 4853-4863.
36. D'Auria, G., Jiménez-Hernández, N., Peris-Bondia, F., Moya, A., and Latorre, A. (2010). Legionella pneumophila pangenome reveals strain-specific virulence factors. BMC Genomics 11, 181.
37. de Bruijn, I., Meyer, I., Gerez, L., Nauta, J., Giezeman, K., and Palache, B. (2007). Antibody induction by virosomal, MF59- adjuvanted, or conventional influenza vaccines in the elderly. Vaccine 26, 119-127. (Pubitemid 350213204)
38. Dhiman, N., Poland, G.A., Cunningham, J.M., Jacobson, R.M., Ovsyannikova, I.G., Vierkant, R.A., et al. (2007). Variations in measles vaccine-specific humoral immunity by polymorphisms in SLAM and CD46 measles virus receptors. J Allergy Clin Immunol 120, 666-672. (Pubitemid 47320741)
39. Dhiman, N., Ovsyannikova, I.G., Vierkant, R.A., Ryan, J.E., Pankratz, V.S., Jacobson, R.M., and Poland, G.A. (2008). Associations between SNPs in toll-like receptors and related intracellular signaling molecules and immune responses to measles vaccine: preliminary results. Vaccine 26, 1731-1736.
40. Doolan, D.L., Mu, Y., Unal, B., Sundaresh, S., Hirst, S., Valdez, C., et al. (2008). Profiling humoral immune responses to P. falciparum infection with protein microarrays. Proteomics 8, 4680-4694.
41. Dormitzer, P.R., Ulmer, J.B., and Rappuoli, R. (2008). Structurebased antigen design: a strategy for next generation vaccines. Trends Biotechnol 26, 659-667.
42. Doro, F., Liberatori, S., Rodriguez-Ortega, M.J., Rinaudo, C.D., Rosini, R., Mora, M., et al. (2009). Surfome analysis as a fast track to vaccine discovery: identification of a novel protective antigen for Group B Streptococcus hypervirulent strain COH1. Mol Cell Proteomics 8, 1728-1737.
43. Durant, L., Metais, A., Soulama-Mouze, C., Genevard, J.M., Nassif, X., Escaich, S. (2007). Identification of candidates for a subunit vaccine against extraintestinal pathogenic Escherichia coli. Infect Immun 75, 1916-1925. (Pubitemid 46559461)
44. Dutta, A., Singh, S.K., Ghosh, P., Mukherjee, R., Mitter, S., and Bandyopadhyay, D. (2006). In silico identification of potential therapeutic targets in the human pathogen Helicobacter pylori. In Silico Biol 6, 43-47. (Pubitemid 43905155)
45. El-Etr, S.H., Mueller, A., Tompkins, L.S., Falkow, S., and Merrell, D.S. (2004). Phosphorylation-independent effects of CagA during interaction between Helicobacter pylori and T84 polarized monolayers. J Infect Dis 190, 1516-1523. (Pubitemid 39332193)
46. Enserink, M. (2010). Global public health. Scientists' new eradication target: a word in their lexicon. Science 330, 1738-1739.
47. Etz, H., Minh, D.B., Henics, T., Dryla, A., Winkler, B., Triska, C., et al. (2002). Identification of in vivo expressed vaccine candidate antigens from Staphylococcus aureus. Proc Natl Acad Sci USA 99, 6573-6578. (Pubitemid 34526174)
48. Felgner, P.L., Kayala, M.A., Vigil, A., Burk, C., Nakajima-Sasaki, R., Pablo, J., et al. (2009). A Burkholderia pseudomallei protein microarray reveals serodiagnostic and cross-reactive antigens. Proc Natl Acad Sci USA 106, 13499-13504.
49. Fisher, M.A., Plikaytis, B.B., and Shinnick, T.M. (2002). Microarray analysis of the Mycobacterium tuberculosis transcriptional response to the acidic conditions found in phagosomes. J Bacteriol 184, 4025-4032. (Pubitemid 34705461)
50. Fleischmann, R.D., Adams, M.D., White, O., Clayton, R.A., Kirkness, E.F., Kerlavage, A.R., et al. (1995). Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269, 496-512.
51. Fontan, P., Aris, V., Ghanny, S., Soteropoulos, P., and Smith, I. (2008). Global transcriptional profile of Mycobacterium tuberculosis during THP-1 human macrophage infection. Infect Immun 76, 717-725. (Pubitemid 351251743)
52. Fraser, C.M., Eisen, J.A., and Salzberg, S.L. (2000). Microbial genome sequencing. Nature 406, 799-803.
53. Fritzer, A., Senn, B.M., Minh, D.B., Hanner, M., Gelbmann, D., Noiges, B., et al. (2010). Novel conserved group A streptococcal proteins identified by the antigenome technology as vaccine candidates for a non-M protein-based vaccine. Infect Immun 78, 4051-4067.
54. Galka, F., Wai, S.N., Kusch, H., Engelmann, S., Hecker, M., Schmeck, B., et al. (2008). Proteomic characterization of the whole secretome of Legionella pneumophila and functional analysis of outer membrane vesicles. Infect Immun 76, 1825-1836. (Pubitemid 351656116)
55. Garcon, N., Van Mechelen, M., Wettendorff, M. (2006). Development and evaluation of AS04, a novel and improved adjuvant system containing MPL and aluminium salt. In: Immunopotentiators in Modern Vaccines (Elsevier Academic Press, London, UK).
56. Gautam, P., Shankar, J., Madan, T., Sirdeshmukh, R., Sundaram, C.S., Gade, W.N., et al. (2008). Proteomic and transcriptomic analysis of Aspergillus fumigatus on exposure to amphotericin B. Antimicrob Agents Chemother 52, 4220-4227.
57. Ge, X., Kitten, T., Munro, C.L., Conrad, D.H., and Xu, P. (2010). Pooled protein immunization for identification of cell surface antigens in Streptococcus sanguinis. PLoS One 5, e11666.
58. Ghiara, P., Rossi, M., Marchetti, M., Di Tommaso, A., Vindigni, C., Ciampolini, F., et al. (1997). Therapeutic intragastric vaccination against Helicobacter pylori in mice eradicates an otherwise chronic infection and confers protection against reinfection. Infect Immun 65, 4996-5002. (Pubitemid 27513542)
59. Giefing, C., Meinke, A.L., Hanner, M., Henics, T., Bui, M.D., Gelbmann, D., et al. (2008). Discovery of a novel class of highly conserved vaccine antigens using genomic scale antigenic fingerprinting of pneumococcus with human antibodies. J Exp Med 205, 117-131. (Pubitemid 351185720)
60. Giri, P.K., Kruh, N.A., Dobos, K.M., and Schorey, J.S. (2010). Proteomic analysis identifies highly antigenic proteins in exosomes from M. tuberculosis-infected and culture filtrate protein-treated macrophages. Proteomics 10, 3190-3202.
61. Giuliani, M.M., Adu-Bobie, J., Comanducci, M., Arico, B., Savino, S., Santini, L., et al. (2006). A universal vaccine for serogroup B meningococcus. Proc Natl Acad Sci USA 103, 10834-10839. (Pubitemid 44148381)
62. Godley, L., Pfeifer, J., Steinhauer, D., Ely, B., Shaw, G., Kaufmann, R., et al. (1992). Introduction of intersubunit disulfide bonds in the membrane-distal region of the influenza hemagglutinin abolishes membrane fusion activity. Cell 68, 635-645.
63. Gomase, V.S., and Tagore, S. (2008). Toxicogenomics. Curr Drug Metab 9, 250-254. (Pubitemid 351843593)
64. Grandi, G. (2001). Antibacterial vaccine design using genomics and proteomics. Trends Biotechnol 19, 181-188. (Pubitemid 32280862)
65. Grifantini, R., Bartolini, E., Muzzi, A., Draghi, M., Frigimelica, E., Berger, J., et al. (2002). Previously unrecognized vaccine candidates against group B meningococcus identified by DNA microarrays. Nat Biotechnol 20, 914-921. (Pubitemid 35001129)
66. Gulati, U., Hwang, C.C., Venkatramani, L., Gulati, S., Stray, S.J., Lee, J.T., et al. (2002). Antibody epitopes on the neuraminidase of a recent H3N2 influenza virus (A/Memphis/31/98). J Virol 76, 12274-12280. (Pubitemid 35304325)
67. Gupta, R.K., and Siber, G.R. (1995). Adjuvants for human vaccines- current status, problems and future prospects. Vaccine 13, 1263-1276.
68. Hang, L., John, M., Asaduzzaman, M., Bridges, E.A., Vanderspurt, C., Kirn, T.J., et al. (2003). Use of in vivo-induced antigen technology (IVIAT) to identify genes uniquely expressed during human infection with Vibrio cholerae. Proc Natl Acad Sci USA 100, 8508-8513. (Pubitemid 36842575)
69. Hart, R.A., Giltinan, D.M., Lester, P.M., Reifsnyder, H., Ogez, J.R., and Builder, S.E. (1994). Effect of environment on insulinlike growth factor I refolding selectivity. Biotechnol Appl Biochem 20(Pt 2), 217-232. (Pubitemid 2142466)
70. Heinz, E., Tischler, P., Rattei, T., Myers, G., Wagner, M., Horn, M., et al. (2009). Comprehensive in silico prediction and analysis of chlamydial outer membrane proteins reflects evolution and life style of the Chlamydiae. BMC Genomics 10, 634.
71. Henics, T., Winkler, B., Pfeifer, U., Gill, S.R., Buschle, M., von Gabain, A., et al. (2003). Small-fragment genomic libraries for the display of putative epitopes from clinically significant pathogens. Biotechniques 35, 196-202, 204, 206 passim.
72. Hernaez, M.L., Ximénez-Embú n, P., Martínez-Gomariz, M., Gutiérrez-Blázquez, M.D., Nombela, C., and Gil, C. (2010). Identification of Candida albicans exposed surface proteins in vivo by a rapid proteomic approach. J Proteomics 73, 1404-1409.
73. Hewat, E.A., Marlovits, T.C., and Blaas, D. (1998). Structure of a neutralizing antibody bound monovalently to human rhinovirus 2. J Virol 72, 4396-4402. (Pubitemid 28188746)
74. Hiller, N.L., Janto, B., Hogg, J.S., Boissy, R., Yu, S., Powell, E., et al. (2007). Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome. J Bacteriol 189, 8186-8195. (Pubitemid 350178930)
75. Iwasaki, A., and Medzhitov, R. (2004). Toll-like receptor control of the adaptive immune responses. Nat Immunol 5, 987-995. (Pubitemid 41057715)
76. Iwasaki, A., and Medzhitov, R. (2010). Regulation of adaptive immunity by the innate immune system. Science 327, 291-295.
77. Jabbour, R.E., Wade, M.M., Deshpande, S.V., Stanford, M.F., Wick, C.H., Zulich, A.W., et al. (2010). Identification of Yersinia pestis and Escherichia coli strains by whole cell and outer membrane protein extracts with mass spectrometry-based proteomics. J Proteome Res 9, 3647-3655.
78. Joachimiak, A. (2009). High-throughput crystallography for structural genomics. Curr Opin Struct Biol 19, 573-584.
79. Kamel, N., Compton, C., Middelveld, R., Higenbottam, T., and Dahlen, S.E. (2008). The Innovative Medicines Initiative (IMI): a new opportunity for scientific collaboration between academia and industry at the European level. Eur Respir J 31, 924-926.
80. Kanlaya, R., Pattanakitsakul, S.N., Sinchaikul, S., Chen, S.T., and Thongboonkerd, V. (2009). Alterations in actin cytoskeletal assembly and junctional protein complexes in human endothelial cells induced by dengue virus infection and mimicry of leukocyte transendothelial migration. J Proteome Res 8, 2551-2562.
81. Kato-Maeda, M., Gao, Q., and Small, P.M. (2001). Microarray analysis of pathogens and their interaction with hosts. Cell Microbiol 3, 713-719. (Pubitemid 33061931)
82. Kaushik, D.K., and Sehgal, D. (2008). Developing antibacterial vaccines in genomics and proteomics era. Scand J Immunol 67, 544-552. (Pubitemid 351677415)
83. Kavermann, H., Burns, B.P., Angermuller, K., Odenbreit, S., Fischer, W., Melchers, K., et al. (2003). Identification and characterization of Helicobacter pylori genes essential for gastric colonization. J Exp Med 197, 813-822. (Pubitemid 36437859)
84. Kendrew, J.C., and Perutz, M.F. (1948). A comparative X-ray study of foetal and adult sheep haemoglobins. Proc R Soc Lond A Math Phys Sci 194, 375-398.
85. Khemiri, A., Galland, A., Vaudry, D., Chan Tchi Song, P., Vaudry, H., Jouenne, T., et al. (2008). Outer-membrane proteomic maps and surface-exposed proteins of Legionella pneumophila using cellular fractionation and fluorescent labelling. Anal Bioanal Chem 390, 1861-1871.
86. Klee, S. R., Brzuszkiewicz, E.B., Nattermann, H., Brüggemann, H., Dupke, S., Wollherr, A., et al. (2010). The genome of a Bacillus isolate causing anthrax in chimpanzees combines chromosomal properties of B. cereus with B. anthracis virulence plasmids. PLoS One 5, e10986.
87. Kolker, E. (2010). A vision for 21st century U.S. Policy to support sustainable advancement of scientific discovery and technological innovation. OMICS 14, 333-335.
88. Kong, L., Sheppard, N.C., Stewart-Jones, G.B., Robson, C.L., Chen, H., Xu, X., et al. (2010). Expression-system-dependent modulation of HIV-1 envelope glycoprotein antigenicity and immunogenicity. J Mol Biol 403, 131-147.
89. LaRocque, R.C., Harris, J.B., Ryan, E.T., Qadri, F., and Calderwood, S.B. (2006). Postgenomic approaches to cholera vaccine development. Expert Rev Vaccines 5, 337-346. (Pubitemid 44167155)
90. Levine, M.M., and Robins-Browne, R. (2009). Vaccines, global health and social equity. Immunol Cell Biol 87, 274-278.
91. Levine, M.M., and Sztein, M.B. (2004). Vaccine development strategies for improving immunization: the role of modern immunology. Nat Immunol 5, 460-464. (Pubitemid 38660452)
92. Levine, O.S., Hajjeh, R., Wecker, J., Cherian, T., O'Brien, K.L., Knoll, M.D., et al. (2010). A policy framework for accelerating adoption of new vaccines. Hum Vaccin 6.
93. Li, D., Borovkov, A., Vaglenov, A., Wang, C., Kim, T., Gao, D., et al. (2006). Mouse model of respiratory Chlamydia pneumoniae infection for a genomic screen of subunit vaccine candidates. Vaccine 24, 2917-2927.
94. Li, Q., Gao, J.Q., Qiu, L.Y., Cui, F.D., and Jin, Y. (2007). Enhanced immune responses induced by vaccine using Sendai virosomes as carrier. Int J Pharm 329, 117-121. (Pubitemid 44937537)
95. Li, S.D., Tong, L., Cheng, S.H., Ding, Y., Li, S.B., and Wang, S.Q. (2003). Fabrication and optimization of HLA-DRB1-12 oligonucleotide microarray. Zhongguo Shi Yan Xue Ye Xue Za Zhi 11, 393-397.
96. Li, Y., Zeng, J., Shi, J., Wang, M., Rao, M., Xue, C., et al. (2010). A proteome-scale identification of novel antigenic proteins in Mycobacterium tuberculosis toward diagnostic and vaccine development. J Proteome Res 9, 4812-4822.
97. Lin, X., Hudock, H., Arumugham, R., and Loun, B. (2008). Identification of particulates in vaccine formulations containing aluminum phosphate. Vaccine 26, 6814-6817.
98. Liu, L., Cheng, G., Wang, C., Pan, X., Cong, Y., Pan, Q., et al. (2009). Identification and experimental verification of protective antigens against Streptococcus suis serotype 2 based on genome sequence analysis. Curr Microbiol 58, 11-17.
99. Liu, S., Tobias, R., McClure, S., Styba, G., Shi, Q., and Jackowski, G. (1997). Removal of endotoxin from recombinant protein preparations. Clin Biochem 30, 455-463. (Pubitemid 27418541)
100. Longbottom, D., and Livingstone, M. (2006). Vaccination against chlamydial infections of man and animals. Vet J 171, 263-275. (Pubitemid 43257230)
101. Lowe, A.M., Beattie, D.T., and Deresiewicz, R.L. (1998). Identification of novel staphylococcal virulence genes by in vivo expression technology. Mol Microbiol 27, 967-976. (Pubitemid 28254946)
102. 2132), nadA, porA, sequence type (ST), and genomic presence of IS1301 in group B meningococcal ST269 clonal complex isolates from England and Wales. J Clin Microbiol 47, 3577-3585.
103. Maione, D., Margarit, I., Rinaudo, C.D., Masignani, V., Mora, M., Scarselli, M., et al. (2005). Identification of a universal Group B streptococcus vaccine by multiple genome screen. Science 309, 148-150. (Pubitemid 40934997)
104. Malfertheiner, P., Schultze, V., Rosenkranz, B., Kaufmann, S.H., Ulrichs, T., Novicki, D., et al. (2008). Safety and immunogenicity of an intramuscular Helicobacter pylori vaccine in noninfected volunteers: a phase I study. Gastroenterology 135, 787-795.
105. Margarit, I., Rinaudo, C.D., Galeotti, C.L., Maione, D., Ghezzo, C., Buttazzoni, E., et al. (2009). Preventing bacterial infections with pilus-based vaccines: the group B streptococcus paradigm. J Infect Dis 199, 108-115.
106. Mariappan, V., Vellasamy, K.M., Thimma, J.S., Hashim, O.H., and Vadivelu, J. (2010). Identification of immunogenic proteins from Burkholderia cepacia secretome using proteomic analysis. Vaccine 28, 1318-1324.
107. Matsumae, H., Minobe, S., Kindan, K., Watanabe, T., Sato, T., and Tosa, T. (1990). Specific removal of endotoxin from protein solutions by immobilized histidine. Biotechnol Appl Biochem 12, 129-140. (Pubitemid 20216087)
108. Mbow, M.L., De Gregorio, E., Valiante, N.M., and Rappuoli, R. (2010). New adjuvants for human vaccines. Curr Opin Immunol 22, 411-416.
109. McCarthy, A.J., and Lindsay, J.A. (2010). Genetic variation in Staphylococcus aureus surface and immune evasion genes is lineage associated: implications for vaccine design and host- pathogen interactions. BMC Microbiol 10, 173.
110. McMullan, D., Canaves, J.M., Quijano, K., Abdubek, P., Nigoghossian, E., Haugen, J., et al. (2005). High-throughput protein production for X-ray crystallography and use of size exclusion chromatography to validate or refute computational biological unit predictions. J Struct Funct Genomics 6, 135-141. (Pubitemid 41428121)
111. Medini, D., Donati, C., Tettelin, H., Masignani, V., and Rappuoli, R. (2005). The microbial pan-genome. Curr Opin Genet Dev 15, 589-594. (Pubitemid 41532330)
112. Medini, D., Serruto, D., Parkhill, J., Relman, D.A., Donati, C., Moxon, R., et al. (2008). Microbiology in the post-genomic era. Nat Rev Microbiol 6, 419-430.
113. Meinke, A., Henics, T., Hanner, M., Minh, D.B., and Nagy, E. (2005). Antigenome technology: a novel approach for the selection of bacterial vaccine candidate antigens. Vaccine 23, 2035-2041. (Pubitemid 40341423)
114. Meinke, A., Storm, M., Henics, T., Gelbmann, D., Prustomersky, S., Kovacs, Z., et al. (2009). Composition of the ANTIGENome of Helicobacter pylori defined by human serum antibodies. Vaccine 27, 3251-3259.
115. Meinke, A.L., Senn, B.M., Visram, Z., Henics, T.Z., Minh, D.B., Schüler, W., et al. (2010). Immunological fingerprinting of group B streptococci: from circulating human antibodies to protective antigens. Vaccine 28, 6997-7008.
116. Meyer, U.A. (2004). Pharmacogenetics-five decades of therapeutic lessons from genetic diversity. Nat Rev Genet 5, 669-676. (Pubitemid 39150124)
117. Miles, A.P., McClellan, H.A., Rausch, K.M., Zhu, D., Whitmore, M.D., Singh, S., et al. (2005). Montanide ISA 720 vaccines: quality control of emulsions, stability of formulated antigens, and comparative immunogenicity of vaccine formulations. Vaccine 23, 2530-2539.
118. Mitzner, S., Schneidewind, J., Falkenhagen, D., Loth, F., and Klinkmann, H. (1993). Extracorporeal endotoxin removal by immobilized polyethylenimine. Artif Organs 17, 775-781. (Pubitemid 23288688)
119. Mochon, A.B., Jin, Y., Kayala, M.A., Wingard, J.R., Clancy, C.J., Nguyen, M.H., et al. (2010). Serological profiling of a Candida albicans protein microarray reveals permanent host-pathogen interplay and stage-specific responses during candidemia. PLoS Pathog 6, e1000827.
120. Molloy, M.P., Herbert, B.R., Slade, M.B., Rabilloud, T., Nouwens, A.S., Williams, K.L., et al. (2000). Proteomic analysis of the Escherichia coli outer membrane. Eur J Biochem 267, 2871-2881. (Pubitemid 30321332)
121. Montigiani, S., Falugi, F., Scarselli, M., Finco, O., Petracca, R., Galli, G., et al. (2002). Genomic approach for analysis of surface proteins in Chlamydia pneumoniae. Infect Immun 70, 368-379. (Pubitemid 34028637)
122. Montor, W.R., Huang, J., Hu, Y., Hainsworth, E., Lynch, S., Kronish, J.W., et al. (2009). Genome-wide study of Pseudomonas aeruginosa outer membrane protein immunogenicity using self-assembling protein microarrays. Infect Immun 77, 4877-4886.
123. Moriel, D.G., Bertoldi, I., Spagnuolo, A., Marchi, S., Rosini, R., Nesta, B., et al. (2010). Identification of protective and broadly conserved vaccine antigens from the genome of extraintestinal pathogenic Escherichia coli. Proc Natl Acad Sci USA 107, 9072-9077.
124. Morsczeck, C., Prokhorova, T., Sigh, J., Pfeiffer, M., Bille-Nielsen, M., Petersen, J., et al. (2008). Streptococcus pneumoniae: proteomics of surface proteins for vaccine development. Clin Microbiol Infect 14, 74-81. (Pubitemid 350226574)
125. Mosca, F., Tritto, E., Muzzi, A., Monaci, E., Bagnoli, F., Iavarone, C., et al. (2008). Molecular and cellular signatures of human vaccine adjuvants. Proc Natl Acad Sci USA 105, 10501-10506.
126. Munday, D., Emmott, E., Surtees, R., Lardeau ,C.H., Wu, W., Duprex, W.P., et al. (2010). Quantitative proteomic analysis of A549 cells infected with human respiratory syncytial virus. Mol Cell Proteomics 9, 2438-2459.
127. Myers, G.S., Parker, D., Al-Hasani, K., Kennan, R.M., Seemann, T., Ren, Q., et al. (2007). Genome sequence and identification of candidate vaccine antigens from the animal pathogen Dichelobacter nodosus. Nat Biotechnol 25, 569-575. (Pubitemid 46834843)
128. Nouwens, A.S., Cordwell, S.J., Larsen, M.R., Molloy, M.P., Gillings, M., Willcox, M.D., et al. (2000). Complementing genomics with proteomics: the membrane subproteome of Pseudomonas aeruginosa PAO1. Electrophoresis 21, 3797-3809.
129. O'Hagan, D.T. (2007). MF59 is a safe and potent vaccine adjuvant that enhances protection against influenza virus infection. Expert Rev Vaccines 6, 699-710.
130. O'Hagan, D.T., and De Gregorio, E. (2009). The path to a successful vaccine adjuvant- the long and winding road.' Drug Discov Today 14, 541-551.
131. O'Hagan, D.T., and Valiante, N.M. (2003). Recent advances in the discovery and delivery of vaccine adjuvants. Nat Rev Drug Discov 2, 727-735. (Pubitemid 37361788)
132. Osorio, C. G., Crawford, J.A., Michalski, J., Martinez-Wilson, H., Kaper, J.B., Camilli, A., et al. (2005). Second-generation recombination-based in vivo expression technology for largescale screening for Vibrio cholerae genes induced during infection of the mouse small intestine. Infect Immun 73, 972-980. (Pubitemid 40165757)
133. Ovsyannikova, I.G., Jacobson, R.M., Vierkant, R.A., Pankratz, V.S., Poland, G.A., et al. (2007). HLA supertypes and immune responses to measles-mumps-rubella viral vaccine: findings and implications for vaccine design. Vaccine 25, 3090-3100. (Pubitemid 46482739)
134. Ozdemir, V., Suarez-Kurtz, G., Stenne, R., Somogyi, A.A., Someya, T., Kayaalp, S.O., et al. (2009). Risk assessment and communication tools for genotype associations with multifactorial phenotypes: the concept of edge effect and cultivating an ethical bridge between omics innovations and society. OMICS 13, 43-61.
135. Pancera, M., McLellan, J.S., Wu, X., Zhu, J., Changela, A., Schmidt, S.D., et al. (2010). Crystal structure of PG16 and chimeric dissection with somatically related PG9: structurefunction analysis of two quaternary-specific antibodies that effectively neutralize HIV-1. J Virol 84, 8098-8110.
136. Pastorino, B., Boucomont-Chapeaublanc, E., Peyrefitte, C.N., Belghazi, M., Fusai, T., Rogier, C., et al. (2009). Identification of cellular proteome modifications in response to West Nile virus infection. Mol Cell Proteomics 8, 1623-1637.
137. Pechine, S., Janoir, C., Boureau, H., Gleizes, A., Tsapis, N., Hoys, S., et al. (2007). Diminished intestinal colonization by Clostridium difficile and immune response in mice after mucosal immunization with surface proteins of Clostridium difficile. Vaccine 25, 3946-3954. (Pubitemid 46617001)
138. Peng, X.,Ye, X., and Wang, S. (2004). Identification of novel immunogenic proteins of Shigella flexneri 2a by proteomic methodologies. Vaccine 22, 2750-2756. (Pubitemid 38900650)
139. Perna, N.T., Plunkett, G., 3rd, Burland, V., Mau, B., Glasner, J.D., Rose, D.J., et al. (2001). Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature 409, 529-533. (Pubitemid 32144360)
140. Peter, K., Men, Y., Pantaleo, G., Gander, B., and Corradin, G. (2001). Induction of a cytotoxic T-cell response to HIV-1 proteins with short synthetic peptides and human compatible adjuvants. Vaccine 19, 4121-4129. (Pubitemid 32703631)
141. Petsch, D., and Anspach, F.B. (2000). Endotoxin removal from protein solutions. J Biotechnol 76, 97-119.
142. Phadke, N.D., Molloy, M.P., Steinhoff, S.A., Ulintz, P.J., Andrews, P.C., and Maddock, J.R. (2001). Analysis of the outer membrane proteome of Caulobacter crescentus by two-dimensional electrophoresis and mass spectrometry. Proteomics 1, 705-720. (Pubitemid 33588321)
143. Pieper, R., Zhang, Q., Parmar, P.P., Huang, S.T., Clark, D.J., Alami, H., et al. (2009). The Shigella dysenteriae serotype 1 proteome, profiled in the host intestinal environment, reveals major metabolic modifications and increased expression of invasive proteins. Proteomics 9, 5029-5045.
144. Pizza, M., Scarlato, V., Masignani, V., Giuliani, M.M., Arico, B., Comanducci, M., et al. (2000). Identification of vaccine candidates against serogroup B meningococcus by whole-genome sequencing. Science 287, 1816-1820.
145. Plotkin, S.A. (2005). Vaccines: past, present and future. Nat Med 11, S5-S11.
146. Poland, G.A. (2007). Pharmacology, vaccinomics, and the second golden age of vaccinology. Clin Pharmacol Ther 82, 623-626. (Pubitemid 350114819)
147. Poland, G.A., Ovsyannikova, I.G., and Jacobson, R.M. (2008). Personalized vaccines: the emerging field of vaccinomics. Expert Opin Biol Ther 8, 1659-1667.
148. Poland, G.A., Ovsyannikova, I.G., and Jacobson, R.M. (2009). Application of pharmacogenomics to vaccines. Pharmacogenomics 10, 837-852.
149. Potvin, E., Lehoux, D.E., Kukavica-Ibrulj, I., Richard, K.L., Sanschagrin, F., Lau, G.W., et al. (2003). In vivo functional genomics of Pseudomonas aeruginosa for high-throughput screening of new virulence factors and antibacterial targets. Environ Microbiol 5, 1294-1308. (Pubitemid 38038941)
150. Projan, S.J., Nesin, M., and Dunman, P.M. (2006). Staphylococcal vaccines and immunotherapy: to dream the impossible dream? Curr Opin Pharmacol 6, 473-479. (Pubitemid 44362069)
151. Rappuoli, R. (2000). Reverse vaccinology. Curr Opin Microbiol 3, 445-450.
152. Rappuoli, R. (2001). Reverse vaccinology, a genome-based approach to vaccine development. Vaccine 19, 2688-2691. (Pubitemid 32234290)
153. Rappuoli, R. (2004). From Pasteur to genomics: progress and challenges in infectious diseases. Nat Med 10, 1177-1185. (Pubitemid 39540432)
154. Rappuoli, R. (2007). Bridging the knowledge gaps in vaccine design. Nat Biotechnol 25, 1361-1366. (Pubitemid 350233122)
155. Rappuoli, R., Miller, H.I., and Falkow, S. (2002). Medicine. The intangible value of vaccination. Science 297, 937-939.
156. Ravipaty, S., and Reilly, J.P. (2010). Comprehensive characterization of methicillin-resistant Staphylococcus aureus subsp. aureus COL secretome by two-dimensional liquid chromatography and mass spectrometry. Mol Cell Proteomics 9, 1898-1919.
157. Read, T.D., Salzberg, S.L., Pop, M., Shumway, M., Umayam, L., Jiang, L., et al. (2002). Comparative genome sequencing for discovery of novel polymorphisms in Bacillus anthracis. Science 296, 2028-2033. (Pubitemid 34627526)
158. Read, T.D., Peterson, S.N., Tourasse, N., Baillie, L.W., Paulsen, I.T., Nelson, K.E., et al. (2003). The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria. Nature 423, 81-86. (Pubitemid 36569586)
159. Reddy, S.T., Swartz, M.A., and Hubbell, J.A. (2006). Targeting dendritic cells with biomaterials: developing the next generation of vaccines. Trends Immunol 27, 573-579. (Pubitemid 44708833)
160. Reis, O., Sousa, S., Camejo, A., Villiers, V., Gouin, E., Cossart, P., et al. (2010). LapB, a novel Listeria monocytogenes LPXTG surface adhesin, required for entry into eukaryotic cells and virulence. J Infect Dis 202, 551-562.
161. Rinaudo, C.D., Telford, J.L., Rappuoli, R., and Seib, K.L. (2009). Vaccinology in the genome era. J Clin Invest 119, 2515-2525.
162. Rodriguez-Ortega, M.J., Norais, N., Bensi, G., Liberatori, S., Capo, S., Mora, M., et al. (2006). Characterization and identification of vaccine candidate proteins through analysis of the group A Streptococcus surface proteome. Nat Biotechnol 24, 191-197. (Pubitemid 43221703)
163. Ross, B.C., Czajkowski, L., Hocking, D., Margetts, M., Webb, E., Rothel, L., et al. (2001). Identification of vaccine candidate antigens from a genomic analysis of Porphyromonas gingivalis. Vaccine 19, 4135-4142. (Pubitemid 32703633)
164. Ryan, T.P., Stevens, J.L., and Thomas, C.E. (2008). Strategic applications of toxicogenomics in early drug discovery. Curr Opin Pharmacol 8, 654-660.
165. Sanchez-Burgos, G., Ramos-Castañeda, J., Cedillo-Rivera, R., and Dumonteil, E. (2010). Immunogenicity of novel Dengue virus epitopes identified by bioinformatic analysis. Virus Res 153, 113-120.
166. Sarkar-Tyson, M., and Titball, R.W. (2010). Progress toward development of vaccines against melioidosis: a review. Clin Ther 32, 1437-1445.
167. Sartain, M.J., Slayden, R.A., Singh, K.K., Laal, S., and Belisle, J.T. (2006). Disease state differentiation and identification of tuberculosis biomarkers via native antigen array profiling. Mol Cell Proteomics 5, 2102-2113. (Pubitemid 44817022)
168. Seubert, A., Monaci, E., Pizza, M., O'Hagan, D.T., and Wack, A. (2008). The adjuvants aluminum hydroxide and MF59 induce monocyte and granulocyte chemoattractants and enhance monocyte differentiation toward dendritic cells. J Immunol 180, 5402-5412.
169. Sharma, S.K. (1986). Endotoxin detection and elimination in biotechnology. Biotechnol Appl Biochem 8, 5-22.
170. Silvers, A., and Stein, M.A. (2003). Human rights and genetic discrimination: protecting genomics' promise for public health. J Law Med Ethics 31, 377-389. (Pubitemid 39307074)
171. Singh, S.P., Khan, F., and Mishra, B.N. (2010). Computational characterization of Plasmodium falciparum proteomic data for screening of potential vaccine candidates. Hum Immunol 71, 136-143.
172. Sommer, U., Petersen, J., Pfeiffer, M., Schrotz-King, P., and Morsczeck, C. (2010). Comparison of surface proteomes of enterotoxigenic (ETEC) and commensal Escherichia coli strains. J Microbiol Methods 83, 13-19.
173. Song, X.M., Connor, W., Hokamp, K., Babiuk, L.A., and Potter, A.A. (2009). Transcriptome studies on Streptococcus pneumoniae, illustration of early response genes to THP-1 human macrophages. Genomics 93, 72-82.
174. Song, X. M., Connor, W., Hokamp, K., Babiuk, L.A., and Potter, A.A. (2008a). Streptococcus pneumoniae early response genes to human lung epithelial cells. BMC Res Notes 1, 64.
175. Song, X.M., Connor, W., Jalal, S., Hokamp, K., and Potter, A.A. (2008b). Microarray analysis of Streptococcus pneumoniae gene expression changes to human lung epithelial cells. Can J Microbiol 54, 189-200. (Pubitemid 351398627)
176. Sorgo, A.G., Heilmann, C.J., Dekker, H.L., Brul, S., de Koster, C.G., and Klis, F.M. (2010). Mass spectrometric analysis of the secretome of Candida albicans. Yeast 27, 661-672.
177. Srivastava, I.K., VanDorsten, K., Vojtech, L., Barnett, S.W., and Stamatatos, L. (2003). Changes in the immunogenic properties of soluble gp140 human immunodeficiency virus envelope constructs upon partial deletion of the second hypervariable region. J Virol 77, 2310-2320. (Pubitemid 36222754)
178. Stabler, R.A., He, M., Dawson, L., Martin, M., Valiente, E., Corton, C., et al. (2009). Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium. Genome Biol 10, R102.
179. Stamatatos, L., and Cheng-Mayer, C. (1998). An envelope modification that renders a primary, neutralization-resistant clade B human immunodeficiency virus type 1 isolate highly susceptible to neutralization by sera from other clades. J Virol 72, 7840-7845. (Pubitemid 28421774)
180. Steller, S., Angenendt, P., Cahill, D.J., Heuberger, S., Lehrach, H., and Kreutzberger, J. (2005). Bacterial protein microarrays for identification of new potential diagnostic markers for Neisseria meningitidis infections. Proteomics 5, 2048-2055. (Pubitemid 40770569)
181. Stewart, G.R., Wernisch, L., Stabler, R., Mangan, J.A., Hinds, J., Laing, K.G., et al. (2002). Dissection of the heat-shock response in Mycobacterium tuberculosis using mutants and microarrays. Microbiology 148, 3129-3138. (Pubitemid 35243712)
182. Stranger-Jones, Y.K., Bae, T., and Schneewind, O. (2006). Vaccine assembly from surface proteins of Staphylococcus aureus. Proc Natl Acad Sci USA 103, 16942-16947. (Pubitemid 44737357)
183. Subbarayan, P., Qin, H., Pillai, S., Lee, J.J., Pfendt, A.P., Willing, G., et al. (2010). Expression and characterization of a multivalent human respiratory syncytial virus protein. Mol Biol (Mosk) 44, 477-487.
184. Sun, Y.H., Bakshi, S., Chalmers, R., and Tang, C.M. (2000). Functional genomics of Neisseria meningitidis pathogenesis. Nat Med 6, 1269-1273.
185. Tan, L.C., Chua, A.J., Goh, L.S., Pua, S.M., Cheong, Y.K., and Ng, M.L. (2010). Rapid purification of recombinant dengue and West Nile virus envelope Domain III proteins by metal affinity membrane chromatography. Protein Expr Purif 74, 129-137.
186. Tan, P.L., Jacobson, R.M., Poland, G.A., Jacobsen, S.J., and Pankratz, V.S. (2001). Twin studies of immunogenicity- determining the genetic contribution to vaccine failure. Vaccine 19, 2434-2439. (Pubitemid 32234254)
187. Tettelin, H., Masignani, V., Cieslewicz, M.J., Eisen, J.A., Peterson, S., Wessels, M.R., et al. (2002). Complete genome sequence and comparative genomic analysis of an emerging human pathogen, serotype V Streptococcus agalactiae. Proc Natl Acad Sci USA 99, 12391-12396.
188. Tettelin, H., Saunders, N.J., Heidelberg, J., Jeffries, A.C., Nelson, K.E., Eisen, J.A., et al. (2000). Complete genome sequence of Neisseria meningitidis serogroup B strain MC58. Science 287, 1809-1815. (Pubitemid 30143964)
189. Thomas, D.P., Viudes, A., Monteagudo, C., Lazzell, A.L., Saville, S.P., and López-Ribot, J.L. (2006). A proteomic-based approach for the identification of Candida albicans protein components present in a subunit vaccine that protects against disseminated candidiasis. Proteomics 6, 6033-6041. (Pubitemid 44851388)
190. Tjalsma, H., Bolhuis, A., Jongbloed, J.D., Bron, S., and van Dijl, J.M. (2000). Signal peptide-dependent protein transport in Bacillus subtilis: a genome-based survey of the secretome. Microbiol Mol Biol Rev 64, 515-547.
191. Tjalsma, H., Antelmann, H., Jongbloed, J.D., Braun, P.G., Darmon, E., Dorenbos, R., et al. (2004). Proteomics of protein secretion by Bacillus subtilis: separating the ''secrets'' of the secretome. Microbiol Mol Biol Rev 68, 207-233. (Pubitemid 38756863)
192. Trost, M., Wehmhodie;ner, D., Kadie;rst, U., Dieterich, G., Wehland, J., and Jadie;nsch, L. (2005). Comparative proteome analysis of secretory proteins from pathogenic and nonpathogenic Listeria species. Proteomics 5, 1544-1557. (Pubitemid 40593263)
193. Utt, M., Nilsson, I., Ljungh, A., and Wadström, T. (2002). Identification of novel immunogenic proteins of Helicobacter pylori by proteome technology. J Immunol Methods 259, 1-10. (Pubitemid 33124379)
194. Vidakovics, M.L., Paba, J., Lamberti, Y., Ricart, C.A., de Sousa, M.V., and Rodriguez, M.E. (2007). Profiling the Bordetella pertussis proteome during iron starvation. J Proteome Res 6, 2518-2528. (Pubitemid 47122349)
195. Vytvytska, O., Nagy, E., Blüggel, M., Meyer, H.E., Kurzbauer, R., Huber, L.A., et al. (2002). Identification of vaccine candidate antigens of Staphylococcus aureus by serological proteome analysis. Proteomics 2, 580-590. (Pubitemid 34507348)
196. Wang, J., Zhang, Y., Lu, C., Lei, L., Yu, P., and Zhong, G. (2010). A genome-wide profiling of the humoral immune response to Chlamydia trachomatis infection reveals vaccine candidate antigens expressed in humans. J Immunol 185, 1670-1680.
197. Weber, C., Henne, B., Loth, F., Schoenhofen, M., and Falkenhagen, D. (1995). Development of cationically modified cellulose adsorbents for the removal of endotoxins. ASAIO J 41, M430-M434.
198. Welch, R.A., Burland, V., Plunkett, G., 3rd, Redford, P., Roesch, P., Rasko, D., et al. (2002). Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc Natl Acad Sci USA 99, 17020-17024. (Pubitemid 36034091)
199. Wieser, A., Romann, E., Magistro, G., Hoffmann, C., Nörenberg, D., Weinert, K., et al. (2010). A multiepitope subunit vaccine conveys protection against extraintestinal pathogenic Escherichia coli in mice. Infect Immun 78, 3432-3442.
200. Williamson, Y.M., Moura, H., Schieltz, D., Rees, J., Woolfitt, A.R., Pirkle, J.L., et al. (2010). Mass spectrometric analysis of multiple pertussis toxins and toxoids. J Biomed Biotechnol 2010, 942365.
201. Wizemann, T.M., Heinrichs, J.H., Adamou, J.E., Erwin, A.L., Kunsch, C., Choi, G.H., et al. (2001). Use of a whole genome approach to identify vaccine molecules affording protection against Streptococcus pneumoniae infection. Infect Immun 69, 1593-1598. (Pubitemid 32187614)
202. Woodcock, J., and Woosley, R. (2008). The FDA critical path initiative and its influence on new drug development. Annu Rev Med 59, 1-12. (Pubitemid 351287920)
203. Wright, A., Wait, R., Begum, S., Crossett, B., Nagy, J., Brown, K., et al. (2005). Proteomic analysis of cell surface proteins from Clostridium difficile. Proteomics 5, 2443-2452. (Pubitemid 40835415)
204. Wright, A., Drudy, D., Kyne, L., Brown, K., Fairweather, N.F. (2008). Immunoreactive cell wall proteins of Clostridium difficile identified by human sera. J Med Microbiol 57(Pt 6),750-756. (Pubitemid 351842068)
205. Wu, C.C., and Yates, J.R., 3rd. (2003). The application of mass spectrometry to membrane proteomics. Nat Biotechnol 21, 262-267. (Pubitemid 36314809)
206. Wu, C.C., MacCoss, M.J., Howell, K.E., and Yates, J.R., 3rd. (2003). A method for the comprehensive proteomic analysis of membrane proteins. Nat Biotechnol 21, 532-538. (Pubitemid 36532018)
207. Wu, X., Yang, Z.Y., Li, Y., Hogerkorp, C.M., Schief, W.R., Seaman, M.S., et al. (2010). Rational design of envelope identifies broadly neutralizing human monoclonal antibodies to HIV-1. Science 329, 856-861.
208. Yang, J., Liu, Y., Xu, J., and Li. B. (2010). Characterization of a new protective antigen of Streptococcus canis. Vet Res Commun 34, 413-421.
209. Yang, X.M., Li, N., Chen, J.M., Ou, Y.Z., Jin, H., Lu, H.J., et al. (2006). Comparative proteomic analysis between the invasive and commensal strains of Staphylococcus epidermidis. FEMS Microbiol Lett 261, 32-40. (Pubitemid 43999697)
210. Yao, Y., Sturdevant, D.E., and Otto, M. (2005). Genomewide analysis of gene expression in Staphylococcus epidermidis biofilms: insights into the pathophysiology of S. epidermidis biofilms and the role of phenol-soluble modulins in formation of biofilms. J Infect Dis 191, 289-298. (Pubitemid 40096388)
211. Yen, Y.T., Bhattacharya, M., and Stathopoulos, C. (2008). Genome- wide in silico mapping of the secretome in pathogenic Yersinia pestis KIM. FEMS Microbiol Lett 279, 56-63. (Pubitemid 350308549)
212. Ying, T., Wang, H., Li, M., Wang, J., Wang, J., Shi, Z., et al. (2005a). Immunoproteomics of outer membrane proteins and extracellular proteins of Shigella flexneri 2a 2457T. Proteomics 5, 4777-4793. (Pubitemid 43016899)
213. Ying, T.Y., Wang, J.J., Wang, H.L., Feng, E.L., Wei, K.H., Huang, L.Y., et al. (2005b). Immunoproteomics of membrane proteins of Shigella flexneri 2a 2457T. World J Gastroenterol 11, 6880-6883.
214. Zhang, L., Zhang, Z.P., Zhang, X.E., Lin, F.S., and Ge, F. (2010). Quantitative proteomics analysis reveals BAG3 as a potential target to suppress severe acute respiratory syndrome coronavirus replication. J Virol 84, 6050-6059.
215. Zhong, W., Skwarczynski, M., and Toth, I. (2009). Development of conformational mimetics of conserved Streptococcus pyogenes minimal epitope as vaccine candidates. Curr Drug Deliv 6, 520-527.