ALESSANDRO D SETTE

Summary

Affiliation: La Jolla Institute for Allergy and Immunology
Country: USA

Publications

  1. ncbi Epitope-based vaccines: an update on epitope identification, vaccine design and delivery
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, California 92121, USA
    Curr Opin Immunol 15:461-70. 2003
  2. ncbi The immune epitope database and analysis resource: from vision to blueprint
    Bjoern Peters
    La Jolla Institute of Allergy and Immunology, San Diego, California, USA
    PLoS Biol 3:e91. 2005
  3. ncbi Identification and localization of minimal MHC-restricted CD8+ T cell epitopes within the Plasmodium falciparum AMA1 protein
    Martha Sedegah
    USMMVP, Malaria Department, NMRC, Silver Spring, MD 20910, USA
    Malar J 9:241. 2010
  4. ncbi Human immunome, bioinformatic analyses using HLA supermotifs and the parasite genome, binding assays, studies of human T cell responses, and immunization of HLA-A*1101 transgenic mice including novel adjuvants provide a foundation for HLA-A03 restricted C
    Hua Cong
    Departments of Surgery Ophthalmology and Visual Sciences and Pediatrics Infectious Disease, Committees on Immunology, Molecular Medicine, and Genetics, Institute of Genomics and Systems Biology, and The College, The University of Chicago, Chicago, Illinois 60637, USA
    Immunome Res 6:12. 2010
  5. ncbi Polyfunctional CD4+ T cell responses to a set of pathogenic arenaviruses provide broad population coverage
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, California, 92037 USA
    Immunome Res 6:4. 2010
  6. ncbi Functional analysis of frequently expressed Chinese rhesus macaque MHC class I molecules Mamu-A1*02601 and Mamu-B*08301 reveals HLA-A2 and HLA-A3 supertypic specificities
    Scott Southwood
    Department of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    Immunogenetics 63:275-90. 2011
  7. ncbi HLA class I supertypes: a revised and updated classification
    John Sidney
    Division of Vaccine Discovery, The La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    BMC Immunol 9:1. 2008
  8. ncbi Predicting population coverage of T-cell epitope-based diagnostics and vaccines
    Huynh Hoa Bui
    La Jolla Institute for Allergy and Immunology, Division of Vaccine Discovery, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    BMC Bioinformatics 7:153. 2006
  9. ncbi Curation of complex, context-dependent immunological data
    Randi Vita
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, California, USA
    BMC Bioinformatics 7:341. 2006
  10. ncbi Automating document classification for the Immune Epitope Database
    Peng Wang
    The La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    BMC Bioinformatics 8:269. 2007

Collaborators

Detail Information

Publications67

  1. ncbi Epitope-based vaccines: an update on epitope identification, vaccine design and delivery
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, California 92121, USA
    Curr Opin Immunol 15:461-70. 2003
    ..Recent advances in understanding the mechanisms of immunodominance thus represent an opportunity to further develop the epitope-based approach...
  2. ncbi The immune epitope database and analysis resource: from vision to blueprint
    Bjoern Peters
    La Jolla Institute of Allergy and Immunology, San Diego, California, USA
    PLoS Biol 3:e91. 2005
  3. ncbi Identification and localization of minimal MHC-restricted CD8+ T cell epitopes within the Plasmodium falciparum AMA1 protein
    Martha Sedegah
    USMMVP, Malaria Department, NMRC, Silver Spring, MD 20910, USA
    Malar J 9:241. 2010
    ..Since CD8+ T cell responses have been implicated in protection against pre-erythrocytic stage malaria, this study was designed to identify MHC class I-restricted epitopes within AMA1...
  4. ncbi Human immunome, bioinformatic analyses using HLA supermotifs and the parasite genome, binding assays, studies of human T cell responses, and immunization of HLA-A*1101 transgenic mice including novel adjuvants provide a foundation for HLA-A03 restricted C
    Hua Cong
    Departments of Surgery Ophthalmology and Visual Sciences and Pediatrics Infectious Disease, Committees on Immunology, Molecular Medicine, and Genetics, Institute of Genomics and Systems Biology, and The College, The University of Chicago, Chicago, Illinois 60637, USA
    Immunome Res 6:12. 2010
    ....
  5. ncbi Polyfunctional CD4+ T cell responses to a set of pathogenic arenaviruses provide broad population coverage
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, California, 92037 USA
    Immunome Res 6:4. 2010
    ....
  6. ncbi Functional analysis of frequently expressed Chinese rhesus macaque MHC class I molecules Mamu-A1*02601 and Mamu-B*08301 reveals HLA-A2 and HLA-A3 supertypic specificities
    Scott Southwood
    Department of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    Immunogenetics 63:275-90. 2011
    ....
  7. ncbi HLA class I supertypes: a revised and updated classification
    John Sidney
    Division of Vaccine Discovery, The La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    BMC Immunol 9:1. 2008
    ..The utility of this original supertype classification, as well several other subsequent arrangements derived by others, has been demonstrated in a large number of epitope identification studies...
  8. ncbi Predicting population coverage of T-cell epitope-based diagnostics and vaccines
    Huynh Hoa Bui
    La Jolla Institute for Allergy and Immunology, Division of Vaccine Discovery, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    BMC Bioinformatics 7:153. 2006
    ..Thus, without careful consideration, a vaccine or diagnostic with ethnically biased population coverage could result...
  9. ncbi Curation of complex, context-dependent immunological data
    Randi Vita
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, California, USA
    BMC Bioinformatics 7:341. 2006
    ..The Immune Epitope Database and Analysis Resource (IEDB) is dedicated to capturing, housing and analyzing complex immune epitope related data http://www.immuneepitope.org...
  10. ncbi Automating document classification for the Immune Epitope Database
    Peng Wang
    The La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    BMC Bioinformatics 8:269. 2007
    ..Like similar projects in other knowledge domains, significant effort is spent on identifying which articles are relevant for this purpose...
  11. ncbi Peptide binding predictions for HLA DR, DP and DQ molecules
    Peng Wang
    La Jolla Institute for Allergy and Immunology, La Jolla, USA
    BMC Bioinformatics 11:568. 2010
    ..This reflects a significant gap in knowledge as HLA DP and DQ molecules are presumably equally important, and have only been studied less because they are more difficult to handle experimentally...
  12. ncbi Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior
    Yohan Kim
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, California, USA
    BMC Bioinformatics 10:394. 2009
    ..Our aim is to quantify this measure of similarity to improve peptide:MHC binding prediction methods. This should help compensate for holes and bias in the sequence space coverage of existing peptide binding datasets...
  13. ncbi Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines
    Huynh Hoa Bui
    La Jolla Institute for Allergy and Immunology, Division of Vaccine Discovery, 9420 Athena Circle, La Jolla, CA 92037, USA
    BMC Bioinformatics 8:361. 2007
    ..In both cases, concrete information pertaining to the degree of conservancy of the epitope(s) considered is crucial...
  14. ncbi Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method
    Bjoern Peters
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    BMC Bioinformatics 6:132. 2005
    ..This method has been successfully applied to predicting peptide binding to MHC molecules, peptide transport by the transporter associated with antigen presentation (TAP) and proteasomal cleavage of protein sequences...
  15. ncbi ElliPro: a new structure-based tool for the prediction of antibody epitopes
    Julia Ponomarenko
    San Diego Supercomputer Center, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093, USA
    BMC Bioinformatics 9:514. 2008
    ..The aim of this work was to implement that method as a web-tool and evaluate its performance on discontinuous epitopes known from the structures of antibody-protein complexes...
  16. ncbi The immune epitope database and analysis resource: from vision to blueprint
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, California 92109, USA
    Genome Inform 15:299. 2004
  17. ncbi Of mice and humans: how good are HLA transgenic mice as a model of human immune responses?
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    Immunome Res 5:3. 2009
    ....
  18. ncbi Classification of A1- and A24-supertype molecules by analysis of their MHC-peptide binding repertoires
    John Sidney
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill St, Ste 326, San Diego, CA, 92109, USA
    Immunogenetics 57:393-408. 2005
    ....
  19. ncbi Definition of epitopes and antigens recognized by vaccinia specific immune responses: their conservation in variola virus sequences, and use as a model system to study complex pathogens
    Alessandro Sette
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    Vaccine 27:G21-6. 2009
    ..Finally, we find that the vast majority of VACV epitopes are conserved in variola virus (VARV), thus suggesting that the epitopes defined herein also have relevance for the efficacy of VACV as a smallpox vaccine...
  20. ncbi A roadmap for the immunomics of category A-C pathogens
    Alessandro Sette
    La Jolla Institute for Allegy and Immunology, San Diego, CA 92121, USA
    Immunity 22:155-61. 2005
    ..Herein is an account of the meeting and its results...
  21. ncbi Class I molecules with similar peptide-binding specificities are the result of both common ancestry and convergent evolution
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, CA 92121, USA
    Immunogenetics 54:830-41. 2003
    ....
  22. ncbi Immune epitope mapping in the post-genomic era: lessons for vaccine development
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, Division of Vaccine Discovery, 9420 Athena Circle, La Jolla, CA 92037, USA
    Curr Opin Immunol 19:106-10. 2007
    ..However, they raise the question if vaccines, which try to emulate protective natural immune responses, should elicit an equally broad range of responses to efficiently convey protection...
  23. ncbi Vaccinia virus-specific CD4+ T cell responses target a set of antigens largely distinct from those targeted by CD8+ T cell responses
    Magdalini Moutaftsi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 178:6814-20. 2007
    ..Taken together, these results highlight fundamental differences in immunodominance of CD4(+) and CD8(+) T cell responses to a complex pathogen...
  24. ncbi HLA-A2-restricted protection against lethal lymphocytic choriomeningitis
    Jason Botten
    Molecular and Integrative Neurosciences Department, The Scripps Research Institute, SP30 2020, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    J Virol 81:2307-17. 2007
    ....
  25. ncbi Simultaneous prediction of binding capacity for multiple molecules of the HLA B44 supertype
    John Sidney
    Division of Translational Immunology and Biodefense, La Jolla Institute for Allergy and Immunology, San Diego, CA 92121, USA
    J Immunol 171:5964-74. 2003
    ..Taken together, these findings have important implications for epitope-based approaches to vaccination, immunotherapy, and the monitoring of immune responses...
  26. ncbi Characterization of the peptide-binding specificity of Mamu-A*11 results in the identification of SIV-derived epitopes and interspecies cross-reactivity
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, CA 92121, USA
    Immunogenetics 57:53-68. 2005
    ..This is the first detailed description of mouse-macaque interspecies cross-reactivity, potentially useful in testing novel vaccines in mice and macaques...
  27. ncbi Derivation of HLA-B*0702 transgenic mice: functional CTL repertoire and recognition of human B*0702-restricted CTL epitopes
    Jeff Alexander
    Epimmune Inc, San Diego, California 92121, USA
    Hum Immunol 64:211-23. 2003
    ....
  28. ncbi Detailed characterization of the peptide binding specificity of five common Patr class I MHC molecules
    John Sidney
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill St, Ste. 326, San Diego, CA 92109, USA
    Immunogenetics 58:559-70. 2006
    ..Because the Patr alleles studied herein were found to be very common in two different chimpanzee populations, the present data should facilitate the use of chimpanzees for immunological studies...
  29. ncbi Immune epitope database analysis resource (IEDB-AR)
    Qing Zhang
    Immune Epitope Database and Analysis Resource IEDB AR, La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA
    Nucleic Acids Res 36:W513-8. 2008
    ..New functionalities have been added to most of the previously implemented tools, and a total of eight new tools were added, including two B-cell epitope prediction tools, four T-cell epitope prediction tools and two analysis tools...
  30. ncbi Selective CD4+ T cell help for antibody responses to a large viral pathogen: deterministic linkage of specificities
    Alessandro Sette
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology LIAI, La Jolla, CA 92037, USA
    Immunity 28:847-58. 2008
    ..Therefore, MHC restriction is a key selective event for the antiviral antibody response and is probably important for vaccine development to large pathogens...
  31. ncbi HLA class I-restricted responses to vaccinia recognize a broad array of proteins mainly involved in virulence and viral gene regulation
    Carla Oseroff
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    Proc Natl Acad Sci U S A 102:13980-5. 2005
    ..Finally, most epitopes were highly conserved among vaccinia virus Western Reserve, variola major and modified vaccinia Ankara, supporting their potential use in vaccine and diagnostic applications...
  32. ncbi Classification of the universe of immune epitope literature: representation and knowledge gaps
    Vince Davies
    La Jolla Institute for Allergy and Immunology, Vaccine Discovery, La Jolla, California, United States of America
    PLoS ONE 4:e6948. 2009
    ..The IEDB is maintained and continually updated by monitoring PubMed for new, potentially relevant references...
  33. ncbi Five HLA-DP molecules frequently expressed in the worldwide human population share a common HLA supertypic binding specificity
    John Sidney
    La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 184:2492-503. 2010
    ..Taken together, these DP supertype molecules are found in >90% of the human population. Thus, these findings have important implications for epitope-identification studies and monitoring of human class II-restricted immune responses...
  34. ncbi Dissociation between epitope hierarchy and immunoprevalence in CD8 responses to vaccinia virus western reserve
    Carla Oseroff
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 180:7193-202. 2008
    ..Together, these findings have clear implications for the design of CD8(+) T cell subunit vaccines and in particular raise the exciting prospect of being able to choose subunits without reference to MHC restriction...
  35. ncbi A multivalent and cross-protective vaccine strategy against arenaviruses associated with human disease
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, California, USA
    PLoS Pathog 5:e1000695. 2009
    ..In conclusion, the set of identified epitopes allows broad, non-ethnically biased coverage of all 7 viral species targeted by our studies...
  36. ncbi A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach
    Peng Wang
    La Jolla Institute for Allergy and Immunology, La Jolla, California, United States of America
    PLoS Comput Biol 4:e1000048. 2008
    ..We show that this consensus approach achieved best overall performance. Finally, we make the large datasets used publicly available as a benchmark to facilitate further development of MHC class II binding peptide prediction methods...
  37. ncbi CD4+ T cells are not required for the induction of dengue virus-specific CD8+ T cell or antibody responses but contribute to protection after vaccination
    Lauren E Yauch
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 185:5405-16. 2010
    ..These findings suggest inducing anti-DENV CD4(+) T cell responses by vaccination may be beneficial...
  38. ncbi A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus
    Magdalini Moutaftsi
    La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, California 92109, USA
    Nat Biotechnol 24:817-9. 2006
    ..This approach reveals the breadth of T-cell responses to vaccinia, a widely studied murine viral infection model, and may provide a tool for developing comprehensive antigenic maps of any complex pathogen...
  39. ncbi A quantitative analysis of the variables affecting the repertoire of T cell specificities recognized after vaccinia virus infection
    Erika Assarsson
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    J Immunol 178:7890-901. 2007
    ..This suggested that additional factors, including immunoregulatory mechanisms, restrict the repertoire of T cell specificities after vaccinia infection by a factor of at least 10...
  40. ncbi Integrating epitope data into the emerging web of biomedical knowledge resources
    Bjoern Peters
    La Jolla Institute for Allergy and Immunology, Division of Vaccine Discovery, 9420 Athena Circle, La Jolla, California 92037, USA
    Nat Rev Immunol 7:485-90. 2007
    ....
  41. ncbi Identification of protective Lassa virus epitopes that are restricted by HLA-A2
    Jason Botten
    Molecular and Integrative Neurosciences Department, The Scripps Research Institute, La Jolla, CA 92037, USA
    J Virol 80:8351-61. 2006
    ....
  42. ncbi Correlates of protection efficacy induced by vaccinia virus-specific CD8+ T-cell epitopes in the murine intranasal challenge model
    Magdalini Moutaftsi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA
    Eur J Immunol 39:717-22. 2009
    ..However, binding affinity partially predicted protection efficacy and ultimately epitope immunogenicity and recognition of infected cells offered the best correlation...
  43. ncbi HLA-A*0201, HLA-A*1101, and HLA-B*0702 transgenic mice recognize numerous poxvirus determinants from a wide variety of viral gene products
    Valerie Pasquetto
    La Jolla Institute for Allergy and Immunology, San Diego, CA 92109, USA
    J Immunol 175:5504-15. 2005
    ..These findings have implications for the design of new smallpox vaccines and the understanding of immune responses to large DNA viruses in general...
  44. ncbi Automated generation and evaluation of specific MHC binding predictive tools: ARB matrix applications
    Huynh-Hoa Bui
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    Immunogenetics 57:304-14. 2005
    ..MHC binding predictions based on ARB matrices were made available at http://epitope.liai.org:8080/matrix web server...
  45. ncbi Immunogenic HLA-B7-restricted peptides of hTRT
    Xochitl Cortez-Gonzalez
    Laboratory of Immunology, Department of Medicine and Moores Cancer Center, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0837, USA
    Int Immunol 18:1707-18. 2006
    ....
  46. ncbi A decaepitope polypeptide primes for multiple CD8+ IFN-gamma and Th lymphocyte responses: evaluation of multiepitope polypeptides as a mode for vaccine delivery
    Jeff Alexander
    Epimmune, San Diego, CA 92121, USA
    J Immunol 168:6189-98. 2002
    ..These studies support further evaluation of multiepitope polypeptide vaccines for induction of CD8(+) IFN-gamma and HTL responses...
  47. ncbi Design and utilization of epitope-based databases and predictive tools
    Nima Salimi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    Immunogenetics 62:185-96. 2010
    ..Taken together, the results highlight the growing impact and utility of immunological databases for the scientific community...
  48. ncbi Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population
    Jason A Greenbaum
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 106:20365-70. 2009
    ..These results are consistent with reports about disease incidence, severity, and mortality rates associated with human S-OIV...
  49. ncbi Immunogenicity and tolerogenicity of hepatitis B virus structural and nonstructural proteins: implications for immunotherapy of persistent viral infections
    Kazuhiro Kakimi
    Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, California 92037, USA
    J Virol 76:8609-20. 2002
    ..Immunotherapeutic strategies to control HBV infection by inducing virus-specific CTL responses in chronically infected subjects should be evaluated in light of this observation...
  50. ncbi IMMUNOCAT-a data management system for epitope mapping studies
    Jo L Chung
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Biomed Biotechnol 2010:856842. 2010
    ..This provides a case study for the use of bioinformatics and information management techniques to track and analyze data produced in a translational research study aimed at epitope identification...
  51. ncbi Molecular determinants of T cell epitope recognition to the common Timothy grass allergen
    Carla Oseroff
    La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 185:943-55. 2010
    ..Consistent with this notion, different Phl p Ags were associated with distinct patterns of IL-5, IFN-gamma, IL-10, and IL-17 production...
  52. ncbi Meta-analysis of all immune epitope data in the Flavivirus genus: inventory of current immune epitope data status in the context of virus immunity and immunopathology
    Kerrie Vaughan
    La Jolla Institute of Allergy and Immunology, La Jolla, CA 92037, USA
    Viral Immunol 23:259-84. 2010
    ..Through this work we hope to provide useful data to those working in the area of Flavivirus research...
  53. ncbi TiArA: a virtual appliance for the analysis of Tiling Array data
    Jason A Greenbaum
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, California, United States of America
    PLoS ONE 5:e9993. 2010
    ..Genomic tiling arrays have been described in the scientific literature since 2003, yet there is a shortage of user-friendly applications available for their analysis...
  54. ncbi Reverse vaccinology: developing vaccines in the era of genomics
    Alessandro Sette
    La Jolla Institute for Allergy and Immunology, San Diego, CA 92130, USA
    Immunity 33:530-41. 2010
    ....
  55. ncbi The design and implementation of the immune epitope database and analysis resource
    Bjoern Peters
    La Jolla Institute of Allergy and Immunology, 3030 Bunker Hill Street, Suite 326, San Diego, CA 92109, USA
    Immunogenetics 57:326-36. 2005
    ..quot; We describe how we plan to capture, structure, and store this information, what query interfaces we will make available to the public, and what additional predictive and analytical tools we will provide...
  56. ncbi The CD8+ T-cell response to lymphocytic choriomeningitis virus involves the L antigen: uncovering new tricks for an old virus
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    J Virol 81:4928-40. 2007
    ..Taken together, these findings illustrate that the LCMV-specific CD8(+) T-cell response is more complex than previously appreciated...
  57. ncbi A community resource benchmarking predictions of peptide binding to MHC-I molecules
    Bjoern Peters
    La Jolla Institute for Allergy and Immunology, San Diego, California, USA
    PLoS Comput Biol 2:e65. 2006
    ....
  58. ncbi Analysis of epitope information related to Bacillus anthracis and Clostridium botulinum
    Laura M Zarebski
    Immune Epitope Database and Analysis Resource, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 9203, 7 USA
    Expert Rev Vaccines 7:55-74. 2008
    ..Despite this, several distinct structures at the epitope and fragment level are described herein, which could be potential additions to future vaccines or targets of novel immunotherapeutics and diagnostic reagents...
  59. ncbi Cutting edge: murine cytomegalovirus induces a polyfunctional CD4 T cell response
    Ramon Arens
    Division of Developmental Immunology, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 180:6472-6. 2008
    ..In total, this study reveals that the MCMV-specific CD4 T cell response is complex and functionally diverse, highlighting its important role in controlling this persistent pathogen...
  60. ncbi Lymphocytic choriomeningitis virus infection yields overlapping CD4+ and CD8+ T-cell responses
    Courtney Dow
    The La Jolla Institute for Allergy and Immunology, La Jolla, California 92037, USA
    J Virol 82:11734-41. 2008
    ..These findings demonstrate that immunodominance is a complex phenomenon in the context of helper responses...
  61. ncbi Preferential use of B7.2 and not B7.1 in priming of vaccinia virus-specific CD8 T cells
    Shahram Salek-Ardakani
    Division of Molecular Immunology, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, San Diego, CA 92037, USA
    J Immunol 182:2909-18. 2009
    ..2 is the major ligand for the CD28 receptor on VACV-specific CD8 T cells, that B7.2 can promote efficient CD8 T cell priming without B7.1, and that B7.1 and B7.2 can be differentially utilized during antiviral responses...
  62. ncbi Naive precursor frequencies and MHC binding rather than the degree of epitope diversity shape CD8+ T cell immunodominance
    Maya F Kotturi
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    J Immunol 181:2124-33. 2008
    ..Thus, our results indicate that an intrinsic property of the epitope (MHC binding affinity) and an intrinsic property of the host (naive precursor frequency) jointly dictate the immunodominance hierarchy of CD8(+) T cell responses...
  63. ncbi The smallpox vaccine induces an early neutralizing IgM response
    Juan E Moyron-Quiroz
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA
    Vaccine 28:140-7. 2009
    ....
  64. ncbi Universal influenza DNA vaccine encoding conserved CD4+ T cell epitopes protects against lethal viral challenge in HLA-DR transgenic mice
    Jeff Alexander
    Pharmexa Epimmune, Inc, San Diego, CA 92121, USA
    Vaccine 28:664-72. 2010
    ..These studies demonstrate the utility of this vaccine format and the contribution of CD4(+) T cell responses to protection against influenza infection...
  65. ncbi The immune epitope database 2.0
    Randi Vita
    La Jolla Institute for Allergy and Immunology, Center for Infectious Disease, Allergy and Asthma Research, 9420 Athena Circle, La Jolla, CA 92037, USA
    Nucleic Acids Res 38:D854-62. 2010
    ..The database structure, as well as its querying, browsing and reporting interfaces, was completely redesigned for the IEDB 2.0 release, which became publicly available in early 2009...
  66. ncbi Tumor-associated carbohydrate antigens: a possible avenue for cancer prevention
    Yanfei Xu
    Torrey Pines Institute for Molecular Studies, San Diego, California, USA
    Immunol Cell Biol 83:440-8. 2005
    ..Our results have suggested that CTL derived from normal donors respond with high efficiency to glycopeptides in vitro, opening a new avenue for the design of prospective vaccines for cancer prevention...
  67. ncbi Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools
    Jason A Greenbaum
    Immune Epitope Database and Analysis Resource IEDB, La Jolla Institute for Allergy and Immunology, La Jolla, California, USA
    J Mol Recognit 20:75-82. 2007
    ..By developing common datasets, standardized data formats, and the means with which to consolidate information, we hope to greatly enhance the development of B-cell epitope prediction tools...

Research Grants8

  1. DOMINANCE IN T CELL RESPONSES TO SMALLPOX VACCINATION
    Alessandro Sette; Fiscal Year: 2003
    ..These variola virus-derived epitopes would be incorporated in an optimized multi-determinant vaccine construct, inserted in the currently available vaccinia vaccine. ..
  2. DOMINANCE IN T CELL RESPONSES TO SMALLPOX VACCINATION
    Alessandro Sette; Fiscal Year: 2006
    ..These variola virus-derived epitopes would be incorporated in an optimized multi-determinant vaccine construct, inserted in the currently available vaccinia vaccine. ..
  3. Immunogenetic characterization of MHC molecules as a tool for biomedical research
    Alessandro Sette; Fiscal Year: 2007
    ..These experiments will validate the approach and tools developed and also identify epitopes that can be utilized to monitor responses in these A-C pathogen systems. ..
  4. The Immunogenetics of Macaques Used in Biodefense Research
    ALESSANDRO D SETTE; Fiscal Year: 2010
    ..This proposal is focused on developing technology and tools to evaluate cell-mediated immunity in these animal models. ..