Reverse vaccinology: developing vaccines in the era of genomics.
暂无分享,去创建一个
[1] C. Pitcher,et al. Use of overlapping peptide mixtures as antigens for cytokine flow cytometry. , 2001, Journal of immunological methods.
[2] R C Slack,et al. What is a community? , 1998, Public health.
[3] Todd M. Allen,et al. Effects of thymic selection of the T cell repertoire on HLA-class I associated control of HIV infection , 2010, Nature.
[4] D. Altmann,et al. An Epitope of Bacillus anthracis Protective Antigen That Is Cryptic in Rabbits May Be Immunodominant in Humans , 2010, Infection and Immunity.
[5] Philip J. R. Goulder,et al. PD-1 expression on HIV-specific T cells is associated with T-cell exhaustion and disease progression , 2006, Nature.
[6] Philip J. R. Goulder,et al. Phenotypic Analysis of Antigen-Specific T Lymphocytes , 1996, Science.
[7] A. T. Glenny,et al. Diphtheria Toxoid as an Immunising Agent. , 1923 .
[8] T. Schumacher,et al. Design and use of conditional MHC class I ligands , 2006, Nature Medicine.
[9] F. Marincola,et al. Comprehensive epitope mapping of the Epstein–Barr virus latent membrane protein-2 in normal, non tumor-bearing individuals , 2007, Cancer Immunology, Immunotherapy.
[10] R. Eisenberg,et al. Dominance and Diversity in the Primary Human CD4 T Cell Response to Replication-Competent Vaccinia Virus1 , 2007, The Journal of Immunology.
[11] D. Heckerman,et al. Adaptive Interactions between HLA and HIV-1: Highly Divergent Selection Imposed by HLA Class I Molecules with Common Supertype Motifs , 2010, The Journal of Immunology.
[12] F. Ennis,et al. Uncovering the interplay between CD8, CD4 and antibody responses to complex pathogens. , 2010, Future microbiology.
[13] H. Tettelin,et al. Identification of a Universal Group B Streptococcus Vaccine by Multiple Genome Screen , 2005, Science.
[14] L. Mitchell,et al. A new categorization of HLA DR alleles on a functional basis. , 1998, Human immunology.
[15] Mario Roederer,et al. HIV nonprogressors preferentially maintain highly functional HIV-specific CD8+ T cells. , 2006, Blood.
[16] Morten Nielsen,et al. A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules , 2006, PLoS Comput. Biol..
[17] M. Gavin,et al. CD8 CTL from Genital Herpes Simplex Lesions: Recognition of Viral Tegument and Immediate Early Proteins and Lysis of Infected Cutaneous Cells1 , 2001, The Journal of Immunology.
[18] A Sette,et al. Meta‐analysis of immune epitope data for all Plasmodia: overview and applications for malarial immunobiology and vaccine‐related issues , 2009, Parasite immunology.
[19] T. Schwartz,et al. The persistence of neutralizing antibodies after revaccination against smallpox. , 1990, The Journal of infectious diseases.
[20] L. Sigal,et al. Antibodies and CD8+ T Cells Are Complementary and Essential for Natural Resistance to a Highly Lethal Cytopathic Virus1 , 2005, The Journal of Immunology.
[21] Bjoern Peters,et al. HLA class I-restricted responses to vaccinia recognize a broad array of proteins mainly involved in virulence and viral gene regulation. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[22] T. Schumacher,et al. MHC multimer technology: current status and future prospects. , 2005, Current opinion in immunology.
[23] P. Nigam,et al. Long-Lived Poxvirus Immunity, Robust CD4 Help, and Better Persistence of CD4 than CD8 T Cells , 2004, Journal of Virology.
[24] G. Grandi,et al. Proteomics Characterization of Outer Membrane Vesicles from the Extraintestinal Pathogenic Escherichia coli ΔtolR IHE3034 Mutant*S , 2008, Molecular & Cellular Proteomics.
[25] John Sidney,et al. A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach , 2008, PLoS Comput. Biol..
[26] Mario Roederer,et al. Frontline : Polyfunctional T cell responses are a hallmark of HIV-2 infection , 2008 .
[27] D. Heckerman,et al. Viral adaptation to immune selection pressure by HLA class I–restricted CTL responses targeting epitopes in HIV frameshift sequences , 2010, The Journal of experimental medicine.
[28] Marion Pepper,et al. Naive CD4(+) T cell frequency varies for different epitopes and predicts repertoire diversity and response magnitude. , 2007, Immunity.
[29] M. Lifton,et al. Dominant CD8+ T-Lymphocyte Responses Suppress Expansion of Vaccine-Elicited Subdominant T Lymphocytes in Rhesus Monkeys Challenged with Pathogenic Simian-Human Immunodeficiency Virus , 2009, Journal of Virology.
[30] Bette T. Korber,et al. Relative Dominance of Gag p24-Specific Cytotoxic T Lymphocytes Is Associated with Human Immunodeficiency Virus Control , 2006, Journal of Virology.
[31] F. Ennis,et al. Human cytotoxic T-cell memory: long-lived responses to vaccinia virus , 1996, Journal of virology.
[32] Irini A. Doytchinova,et al. In Silico Identification of Supertypes for Class II MHCs1 , 2005, The Journal of Immunology.
[33] Bjoern Peters,et al. Naive Precursor Frequencies and MHC Binding Rather Than the Degree of Epitope Diversity Shape CD8+ T Cell Immunodominance1 , 2008, The Journal of Immunology.
[34] Bjoern Peters,et al. Two Kinetic Patterns of Epitope-Specific CD8 T-Cell Responses following Murine Gammaherpesvirus 68 Infection , 2010, Journal of Virology.
[35] D. Heckerman,et al. Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations , 2007, Science.
[36] Anne S De Groot,et al. HIV vaccine development by computer assisted design: the GAIA vaccine. , 2005, Vaccine.
[37] Todd M. Allen,et al. HIV evolution: CTL escape mutation and reversion after transmission , 2004, Nature Medicine.
[38] Magdalini Moutaftsi,et al. Correlates of protection efficacy induced by vaccinia virus‐specific CD8+ T‐cell epitopes in the murine intranasal challenge model , 2009, European journal of immunology.
[39] Magdalini Moutaftsi,et al. Selective CD4+ T cell help for antibody responses to a large viral pathogen: deterministic linkage of specificities. , 2008, Immunity.
[40] Bjoern Peters,et al. Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population , 2009, Proceedings of the National Academy of Sciences.
[41] Todd M. Allen,et al. CD8+ Lymphocytes from Simian Immunodeficiency Virus-Infected Rhesus Macaques Recognize 14 Different Epitopes Bound by the Major Histocompatibility Complex Class I Molecule Mamu-A*01: Implications for Vaccine Design and Testing , 2001, Journal of Virology.
[42] Pierre Baldi,et al. A prospective analysis of the Ab response to Plasmodium falciparum before and after a malaria season by protein microarray , 2010, Proceedings of the National Academy of Sciences.
[43] S. H. van der Burg,et al. Vaccination against HPV-16 oncoproteins for vulvar intraepithelial neoplasia. , 2009, The New England journal of medicine.
[44] M. Feinberg,et al. Differences and Similarities in Viral Life Cycle Progression and Host Cell Physiology after Infection of Human Dendritic Cells with Modified Vaccinia Virus Ankara and Vaccinia Virus , 2006, Journal of Virology.
[45] Bjoern Peters,et al. HLA class I supertypes: a revised and updated classification , 2008, BMC Immunology.
[46] B. Haynes,et al. Immunization with Cocktail of HIV-Derived Peptides in Montanide ISA-51 Is Immunogenic, but Causes Sterile Abscesses and Unacceptable Reactogenicity , 2010, PloS one.
[47] G. Pantaleo,et al. Functional signatures of protective antiviral T‐cell immunity in human virus infections , 2006, Immunological reviews.
[48] John Sidney,et al. Reversion of CTL escape–variant immunodeficiency viruses in vivo , 2004, Nature Medicine.
[49] Morten Nielsen,et al. Quantitative Predictions of Peptide Binding to Any HLA-DR Molecule of Known Sequence: NetMHCIIpan , 2008, PLoS Comput. Biol..
[50] David Heckerman,et al. CD8+ T-cell responses to different HIV proteins have discordant associations with viral load , 2007, Nature Medicine.
[51] J. Venter,et al. Identification of vaccine candidates against serogroup B meningococcus by whole-genome sequencing. , 2000, Science.
[52] O. Lund,et al. NetMHCpan, a Method for Quantitative Predictions of Peptide Binding to Any HLA-A and -B Locus Protein of Known Sequence , 2007, PloS one.
[53] O. Lund,et al. Definition of supertypes for HLA molecules using clustering of specificity matrices , 2004, Immunogenetics.
[54] S. Hansen,et al. Duration of antiviral immunity after smallpox vaccination , 2003, Nature Medicine.
[55] G. Freeman,et al. Restoring function in exhausted CD8 T cells during chronic viral infection , 2006, Nature.
[56] Alessandro Sette,et al. Tat-specific cytotoxic T lymphocytes select for SIV escape variants during resolution of primary viraemia , 2000, Nature.
[57] J. Saurat,et al. Poxvirus as a vector to transduce human dendritic cells for immunotherapy: abortive infection but reduced APC function , 2000, Gene Therapy.
[58] Bjoern Peters,et al. Cutting Edge: Murine Cytomegalovirus Induces a Polyfunctional CD4 T Cell Response1 , 2008, The Journal of Immunology.
[59] Eileen Kraemer,et al. EuPathDB: a portal to eukaryotic pathogen databases , 2009, Nucleic Acids Res..
[60] Arlo Z. Randall,et al. Profiling humoral immune responses to P. falciparum infection with protein microarrays , 2008, Proteomics.
[61] A. Tabilio,et al. Effect of a p210 multipeptide vaccine associated with imatinib or interferon in patients with chronic myeloid leukaemia and persistent residual disease: a multicentre observational trial , 2005, The Lancet.
[62] Devan V Mehrotra,et al. Efficacy assessment of a cell-mediated immunity HIV-1 vaccine (the Step Study): a double-blind, randomised, placebo-controlled, test-of-concept trial , 2008, The Lancet.
[63] V. Appay,et al. Phenotype and function of human T lymphocyte subsets: Consensus and issues , 2008, Cytometry. Part A : the journal of the International Society for Analytical Cytology.
[64] G. Pantaleo,et al. HIV-1-specific IFN-gamma/IL-2-secreting CD8 T cells support CD4-independent proliferation of HIV-1-specific CD8 T cells. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[65] S Buus,et al. Description and prediction of peptide-MHC binding: the 'human MHC project'. , 1999, Current opinion in immunology.
[66] J. Sidney,et al. HLA supertypes and supermotifs: a functional perspective on HLA polymorphism. , 1998, Current opinion in immunology.
[67] R. Rappuoli,et al. Genome Analysis Reveals Pili in Group B Streptococcus , 2005, Science.
[68] G. Karupiah,et al. Correlates of protective immunity in poxvirus infection: where does antibody stand? , 2008, Immunology and cell biology.
[69] Bjoern Peters,et al. An analysis of the epitope knowledge related to Mycobacteria , 2007, Immunome research.
[70] John Sidney,et al. Identification of Plasmodium falciparum antigens by antigenic analysis of genomic and proteomic data , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[71] J. G. Fitzgerald,et al. DIPHTHERIA TOXOID AS AN IMMUNIZING AGENT. , 1927, Canadian Medical Association journal.
[72] E. Jenner. An Inquiry into the Causes and Effects of the Variolae Vaccinae A Disease Discovered in Some of the Western Counties of England, Particularly Gloucestershire, and Known by the Name of the Cow Pox , 2010 .
[73] C. Howard,et al. Recent Advances in the Development of Peptide Vaccines for Hepatitis B , 2001, Intervirology.
[74] Ronna R Mallios,et al. A consensus strategy for combining HLA-DR binding algorithms. , 2003, Human immunology.
[75] D. Flower,et al. Identifiying Human MHC Supertypes Using Bioinformatic Methods , 2004, The Journal of Immunology.
[76] Deborah Hix,et al. PATRIC: The VBI PathoSystems Resource Integration Center , 2006, Nucleic Acids Res..
[77] Bjoern Peters,et al. The CD8+ T-Cell Response to Lymphocytic Choriomeningitis Virus Involves the L Antigen: Uncovering New Tricks for an Old Virus , 2007, Journal of Virology.
[78] D. Watkins,et al. T-Cell Correlates of Vaccine Efficacy after a Heterologous Simian Immunodeficiency Virus Challenge , 2010, Journal of Virology.
[79] R. Steinman,et al. Vaccinia virus inhibits the maturation of human dendritic cells: a novel mechanism of immune evasion. , 1999, Journal of immunology.
[80] L. Stern,et al. Human CD4+ T Cell Epitopes from Vaccinia Virus Induced by Vaccination or Infection , 2007, PLoS pathogens.
[81] R. Rappuoli,et al. A universal vaccine for serogroup B meningococcus. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[82] C. Midgley,et al. Prevalence of antibodies to Vaccinia virus after smallpox vaccination in Italy. , 2005, The Journal of general virology.
[83] Rino Rappuoli,et al. Reverse vaccinology. , 2000, Current opinion in microbiology.
[84] Mark M. Davis,et al. Enumeration and Characterization of Memory Cells in the TH Compartment , 1996, Immunological reviews.
[85] E. Carter,et al. Analyzing Mycobacterium tuberculosis proteomes for candidate vaccine epitopes. , 2005, Tuberculosis.
[86] Rick L. Stevens,et al. National Institute of Allergy and Infectious Diseases Bioinformatics Resource Centers: New Assets for Pathogen Informatics , 2007, Infection and Immunity.
[87] Magdalini Moutaftsi,et al. A consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virus , 2006, Nature Biotechnology.
[88] D. Koelle,et al. Diversity in the Acute CD8 T Cell Response to Vaccinia Virus in Humans 1 2 , 2005, The Journal of Immunology.
[89] M. Kalin,et al. Discovery of a novel class of highly conserved vaccine antigens using genomic scale antigenic fingerprinting of pneumococcus with human antibodies , 2008, The Journal of experimental medicine.
[90] M. Hilleman,et al. Vaccine against human hepatitis B. , 1976, JAMA.
[91] Julie A McMurry,et al. Diversity of Francisella tularensis Schu4 antigens recognized by T lymphocytes after natural infections in humans: identification of candidate epitopes for inclusion in a rationally designed tularemia vaccine. , 2007, Vaccine.
[92] C. Sylvester-Hvid,et al. One-Pot, Mix-and-Read Peptide-MHC Tetramers , 2008, PloS one.
[93] Matthew S. Cook,et al. Immunodominant Tuberculosis CD8 Antigens Preferentially Restricted by HLA-B , 2007, PLoS pathogens.
[94] W. Kastenmuller,et al. Cross-Priming of Cytotoxic T Cells Dictates Antigen Requisites for Modified Vaccinia Virus Ankara Vector Vaccines , 2007, Journal of Virology.
[95] M. John,et al. Skewed association of polyfunctional antigen-specific CD8 T cell populations with HLA-B genotype , 2007, Proceedings of the National Academy of Sciences.
[96] G. Grandi,et al. Discovery of a vaccine antigen that protects mice from Chlamydia pneumoniae infection. , 2007, Vaccine.
[97] Christopher N. Larsen,et al. BioHealthBase: informatics support in the elucidation of influenza virus host–pathogen interactions and virulence , 2007, Nucleic Acids Res..
[98] E. Sercarz,et al. Determinant spreading and the dynamics of the autoimmune T-cell repertoire. , 1993, Immunology today.
[99] A. Sette,et al. Linear PADRE T Helper Epitope and Carbohydrate B Cell Epitope Conjugates Induce Specific High Titer IgG Antibody Responses1 , 2000, The Journal of Immunology.
[100] R. Fleischmann,et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. , 1995, Science.
[101] S Brunak,et al. Identifying cytotoxic T cell epitopes from genomic and proteomic information: "The human MHC project.". , 2000, Reviews in immunogenetics.
[102] W. Mcclements,et al. A simple and efficient method for the monitoring of antigen-specific T cell responses using peptide pool arrays in a modified ELISpot assay. , 2001, Journal of immunological methods.
[103] M. Robb. Failure of the Merck HIV vaccine: an uncertain step forward , 2008, The Lancet.
[104] R. Rappuoli. Reverse vaccinology : Genomics , 2000 .
[105] The Meningococcal Vaccine Candidate GNA1870 Binds the Complement Regulatory Protein Factor H and Enhances Serum Resistance , 2006, The Journal of Immunology.
[106] Lei Huang,et al. A probabilistic meta-predictor for the MHC class II binding peptides , 2007, Immunogenetics.
[107] Bette Korber,et al. Mosaic HIV-1 Vaccines Expand the Breadth and Depth of Cellular Immune Responses in Rhesus Monkeys , 2010, Nature Medicine.
[108] J. Lieberman,et al. Vaccinia Virus Induces Strong Immunoregulatory Cytokine Production in Healthy Human Epidermal Keratinocytes: a Novel Strategy for Immune Evasion , 2005, Journal of Virology.
[109] G. Bensi,et al. Characterization and identification of vaccine candidate proteins through analysis of the group A Streptococcus surface proteome , 2006, Nature Biotechnology.
[110] Qing Zhang,et al. Immune epitope database analysis resource (IEDB-AR) , 2008, Nucleic Acids Res..
[111] Ren-Huan Xu,et al. Direct Presentation Is Sufficient for an Efficient Anti-Viral CD8+ T Cell Response , 2010, PLoS pathogens.
[112] Paul Shapshak,et al. A framework to sub-type HLA supertypes. , 2005, Frontiers in bioscience : a journal and virtual library.
[113] Julie A McMurry,et al. In silico-accelerated identification of conserved and immunogenic variola/vaccinia T-cell epitopes. , 2009, Vaccine.
[114] J. McMurry,et al. Confirmation of Immunogenic Consensus Sequence HIV-1 T-cell Epitopes in Bamako, Mali and Providence, Rhode Island , 2006, Human vaccines.
[115] D. Molina,et al. An Extremely Diverse CD4 Response to Vaccinia Virus in Humans Is Revealed by Proteome-Wide T-Cell Profiling , 2008, Journal of Virology.
[116] J. Sidney,et al. Nine major HLA class I supertypes account for the vast preponderance of HLA-A and -B polymorphism , 1999, Immunogenetics.
[117] Tin Wee Tan,et al. In silico grouping of peptide/HLA class I complexes using structural interaction characteristics , 2007, Bioinform..
[118] David Heckerman,et al. Adaptation of HIV-1 to human leukocyte antigen class I , 2009, Nature.
[119] D. Altmann,et al. Natural Exposure to Cutaneous Anthrax Gives Long-Lasting T Cell Immunity Encompassing Infection-Specific Epitopes , 2010, The Journal of Immunology.
[120] A. Falus. Clinical applications of immunomics , 2009 .
[121] P. Roversi,et al. Neisseria meningitidis recruits factor H using protein mimicry of host carbohydrates , 2009, Nature.
[122] H. Ploegh,et al. The CD8 T-Cell Response against Murine Gammaherpesvirus 68 Is Directed toward a Broad Repertoire of Epitopes from both Early and Late Antigens , 2008, Journal of Virology.
[123] A. Wald,et al. Immunodominance among herpes simplex virus-specific CD8 T cells expressing a tissue-specific homing receptor , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[124] B. Gärtner,et al. PD‐1 Expression and IL‐2 Loss of Cytomegalovirus‐ Specific T Cells Correlates with Viremia and Reversible Functional Anergy , 2008, American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons.
[125] S. Salzberg,et al. Complete genome sequence of Neisseria meningitidis serogroup B strain MC58. , 2000, Science.
[126] Vladimir Brusic,et al. Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research , 2008, BMC Bioinformatics.
[127] Magdalini Moutaftsi,et al. Vaccinia Virus-Specific CD4+ T Cell Responses Target a Set of Antigens Largely Distinct from Those Targeted by CD8+ T Cell Responses1 , 2007, The Journal of Immunology.
[128] V. Brusic,et al. Evaluation of MHC class I peptide binding prediction servers: Applications for vaccine research , 2008, BMC Immunology.
[129] F. Fenner. Smallpox and its eradication , 1988 .
[130] K. Garcia,et al. New Design of MHC Class II Tetramers to Accommodate Fundamental Principles of Antigen Presentation1 , 2009, The Journal of Immunology.
[131] R. Koup,et al. Analysis of Total Human Immunodeficiency Virus (HIV)-Specific CD4+ and CD8+ T-Cell Responses: Relationship to Viral Load in Untreated HIV Infection , 2001, Journal of Virology.
[132] Bjoern Peters,et al. A Protective Role for Dengue Virus-Specific CD8+ T Cells 1 , 2009, The Journal of Immunology.
[133] R. Rappuoli. From Pasteur to genomics: progress and challenges in infectious diseases , 2004, Nature Medicine.
[134] R. Rappuoli,et al. Rationally designed strings of promiscuous CD4+ T cell epitopes provide help to Haemophilus influenzae type b oligosaccharide: a model for new conjugate vaccines , 2001, European journal of immunology.
[135] John F. B. Mitchell,et al. Quantifying the uncertainty in forecasts of anthropogenic climate change , 2000, Nature.
[136] Ellis L Reinherz,et al. Definition of MHC Supertypes Through Clustering of MHC Peptide Binding Repertoires , 2004, ICARIS.
[137] M. Slifka,et al. Vaccinated: One Man’s Quest to Defeat the World’s Deadliest Diseases , 2007 .
[138] J. Yewdell,et al. The DRiP hypothesis decennial: support, controversy, refinement and extension. , 2006, Trends in immunology.
[139] William Martin,et al. Epitope-Based Immunome-Derived Vaccines: A Strategy for Improved Design and Safety , 2008, Clinical Applications of Immunomics.
[140] Luis Villarreal,et al. Cutting Edge: Long-Term B Cell Memory in Humans after Smallpox Vaccination 1 , 2003, The Journal of Immunology.
[141] D. Watkins,et al. Vaccine-Induced Cellular Responses Control Simian Immunodeficiency Virus Replication after Heterologous Challenge , 2009, Journal of Virology.
[142] Bjoern Peters,et al. Diverse recognition of conserved orthopoxvirus CD8+ T cell epitopes in vaccinated rhesus macaques. , 2009, Vaccine.
[143] Tomer Hertz,et al. Identifying HLA supertypes by learning distance functions , 2007, Bioinform..
[144] Morten Nielsen,et al. MHC Class II epitope predictive algorithms , 2010, Immunology.
[145] Gary J. Nabel,et al. New Generation Vaccines , 1990 .
[146] Rosanna Lagos,et al. Vaccines and Vaccination in Historical Perspective , 2009 .
[147] M F del Guercio,et al. Several common HLA-DR types share largely overlapping peptide binding repertoires. , 1998, Journal of immunology.
[148] M. Manns,et al. Therapeutic vaccination of chronic hepatitis C nonresponder patients with the peptide vaccine IC41. , 2008, Gastroenterology.
[149] Leonard Moise,et al. Immunoinformatic comparison of T-cell epitopes contained in novel swine-origin influenza A (H1N1) virus with epitopes in 2008-2009 conventional influenza vaccine. , 2009, Vaccine.