Huynh Hoa Bui

Summary

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

Publications

  1. pmc 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
  2. pmc 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
  3. ncbi request reprint 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
  4. ncbi request reprint 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
  5. ncbi request reprint 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
  6. ncbi request reprint 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
  7. ncbi request reprint 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
  8. pmc 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
  9. ncbi request reprint 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
  10. pmc 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

Detail Information

Publications25

  1. pmc 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...
  2. pmc 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...
  3. ncbi request reprint 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...
  4. ncbi request reprint 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
    ..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...
  5. ncbi request reprint 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...
  6. ncbi request reprint 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...
  7. ncbi request reprint 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...
  8. pmc 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...
  9. ncbi request reprint 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...
  10. pmc 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...
  11. pmc 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
    ....
  12. pmc 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
    ....
  13. ncbi request reprint 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...
  14. pmc 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...
  15. pmc 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
  16. pmc 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...
  17. pmc Ab and T cell epitopes of influenza A virus, knowledge and opportunities
    Huynh Hoa Bui
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 104:246-51. 2007
    ..At the same time, the analysis illustrates gaps in our collective knowledge that should inspire directions for further study of immunity against the influenza A virus...
  18. pmc Immunomic analysis of the repertoire of T-cell specificities for influenza A virus in humans
    Erika Assarsson
    Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA
    J Virol 82:12241-51. 2008
    ..These results enable further functional studies of T-cell responses during influenza virus infection and provide a potential base for the development of a universal influenza vaccine...
  19. pmc 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...
  20. ncbi request reprint 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...
  21. ncbi request reprint WATGEN: an algorithm for modeling water networks at protein-protein interfaces
    Huynh Hoa Bui
    Division of Vaccine Discovery, La Jolla Institute of Allergy and Immunology, 9420 Athena Circle, La Jolla, California 92037, USA
    J Comput Chem 28:2241-51. 2007
    ..Based on these data, we conclude that WATGEN can accurately predict the location of water molecules at a protein-peptide interface, and this may be of value for understanding the energetics and specificity of biomolecular association...
  22. ncbi request reprint 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...
  23. ncbi request reprint Structural prediction of peptides binding to MHC class I molecules
    Huynh Hoa Bui
    Department of Pharmaceutical Sciences, University of Southern California, Los Angeles, California 90089, USA
    Proteins 63:43-52. 2006
    ..In summary, PePSSI is capable of rapid and accurate prediction of peptide-MHC binding conformations, which may in turn allow estimation of MHCI-peptide binding affinity...
  24. ncbi request reprint Chronic lymphocytic choriomeningitis virus infection actively down-regulates CD4+ T cell responses directed against a broad range of epitopes
    Bianca R Mothe
    Department of Biological Sciences, California State University, San Marcos, California 92096, USA
    J Immunol 179:1058-67. 2007
    ..Thus, multiple mechanisms may be involved in the impairment of helper responses in the setting of early persistent infection...
  25. pmc 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
    ....