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Special Report

Deciphering the human antigenome

, &
Pages 167-171 | Received 04 Sep 2015, Accepted 22 Oct 2015, Published online: 02 Dec 2015

References

• Introduces the concept of the Human Vaccines Project.

• Summarizes workshop aimed at deciphering the human immunome.

  • Sette A, Rappuoli R. Reverse vaccinology: developing vaccines in the era of genomics. Immunity. 2010;33:530–541.
  • Crompton PD, Kayala MA, Traore B, et al. A prospective analysis of the Ab response to Plasmodium falciparum before and after a malaria season by protein microarray. Proc Natl Acad Sci USA. 2010;107:6958–6963.
  • Kringelum JV, Nielsen M, Padkjaer SB, et al. Structural analysis of B-cell epitopes in antibody:protein complexes. Mol Immunol. 2013;53:24–34.
  • Sela-Culang I, Benhnia MR, Matho MH, et al. Using a combined computational-experimental approach to predict antibody-specific B cell epitopes. Structure. 2014;22:646–657.
  • Julien JP, Cupo A, Sok D, et al. Crystal structure of a soluble cleaved HIV-1 envelope trimer. Science. 2013;342:1477–1483.
  • McLellan JS, Chen M, Joyce MG, et al. Structure-based design of a fusion glycoprotein vaccine for respiratory syncytial virus. Science. 2013;342:592–598.
  • Davidson E, Doranz BJ. A high-throughput shotgun mutagenesis approach to mapping B-cell antibody epitopes. Immunology. 2014;143:13–20.
  • Lewinsohn DM, Swarbrick GM, Cansler ME, et al. Human CD8 T Cell Antigens/Epitopes Identified by a Proteomic Peptide Library. PLoS One. 2013;8:e67016.

• Identifies T cell epitopes by a proteomic peptide library.

  • Nayak K, Jing L, Russell RM, et al. Identification of novel Mycobacterium tuberculosis CD4 T-cell antigens via high throughput proteome screening. Tuberculosis (Edinb). 2015;95:275–287.

• Identifies TB epitopes by high throughput proteome screening.

  • Johnson KL, Ovsyannikova IG, Mason CJ, et al. Discovery of naturally processed and HLA-presented class I peptides from vaccinia virus infection using mass spectrometry for vaccine development. Vaccine. 2009;28:38–47.
  • Ovsyannikova IG, Johnson KL, Bergen HR 3rd, et al. Mass spectrometry and peptide-based vaccine development. Clin Pharmacol Ther. 2007;82:644–652.
  • Shastri N, Schwab S, Serwold T. Producing nature’s gene-chips: the generation of peptides for display by MHC class I molecules. Annu Rev Immunol. 2002;20:463–493.
  • Greenbaum J, Sidney J, Chung J, et al. Functional classification of class II human leukocyte antigen (HLA) molecules reveals seven different supertypes and a surprising degree of repertoire sharing across supertypes. Immunogenetics. 2011;63:325–335.
  • McKinney DM, Southwood S, Hinz D, et al. A strategy to determine HLA class II restriction broadly covering the DR, DP, and DQ allelic variants most commonly expressed in the general population. Immunogenetics. 2013;65:357–370.
  • Sidney J, Peters B, Frahm N, et al. HLA class I supertypes: a revised and updated classification. BMC Immunol. 2008;9:1.
  • Weiskopf D, Angelo MA, de Azeredo EL, et al. Comprehensive analysis of dengue virus-specific responses supports an HLA-linked protective role for CD8+ T cells. Proc Natl Acad Sci USA. 2013;110:E2046–2053.
  • Gubin MM, Zhang X, Schuster H, et al. Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens. Nature. 2014;515:577–581.

• Identifies tumor-specific antigens after checkpoint blockade.

  • Krutchinsky AN, Padovan JC, Cohen H, et al. Maximizing ion transmission from atmospheric pressure into the vacuum of mass spectrometers with a novel electrospray interface. J Am Soc Mass Spectrom. 2015;26:649–658.
  • Mommen GP, Frese CK, Meiring HD, et al. Expanding the detectable HLA peptide repertoire using electron-transfer/higher-energy collision dissociation (EThcD). Proc Natl Acad Sci USA. 2014;111:4507–4512.
  • Vita R, Overton JA, Greenbaum JA, et al. The immune epitope database (IEDB) 3.0. Nucleic Acids Res. 2015;43:D405–412.

• Highlights the immune epitope database.

  • Kuiken C, Yoon H, Abfalterer W, et al. Viral genome analysis and knowledge management. Methods Mol Biol. 2013;939:253–261.
  • Squires RB, Noronha J, Hunt V, et al. Influenza research database: an integrated bioinformatics resource for influenza research and surveillance. Influenza Other Respir Viruses. 2012;6:404–416.
  • Pickett BE, Sadat EL, Zhang Y, et al. ViPR: an open bioinformatics database and analysis resource for virology research. Nucleic Acids Res. 2012;40:D593–598.

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