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Automatic Generation of Validated Specific Epitope Sets

Accurate measurement of B and T cell responses is a valuable tool to study autoimmunity, allergies, immunity to pathogens, and host-pathogen interactions and assist in the design and evaluation of T cell vaccines and immunotherapies. In this context, it is desirable to elucidate a method to select v...

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Detalles Bibliográficos
Autores principales: Carrasco Pro, Sebastian, Sidney, John, Paul, Sinu, Lindestam Arlehamn, Cecilia, Weiskopf, Daniela, Peters, Bjoern, Sette, Alessandro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Hindawi Publishing Corporation 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4629045/
https://www.ncbi.nlm.nih.gov/pubmed/26568965
http://dx.doi.org/10.1155/2015/763461
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author Carrasco Pro, Sebastian
Sidney, John
Paul, Sinu
Lindestam Arlehamn, Cecilia
Weiskopf, Daniela
Peters, Bjoern
Sette, Alessandro
author_facet Carrasco Pro, Sebastian
Sidney, John
Paul, Sinu
Lindestam Arlehamn, Cecilia
Weiskopf, Daniela
Peters, Bjoern
Sette, Alessandro
author_sort Carrasco Pro, Sebastian
collection PubMed
description Accurate measurement of B and T cell responses is a valuable tool to study autoimmunity, allergies, immunity to pathogens, and host-pathogen interactions and assist in the design and evaluation of T cell vaccines and immunotherapies. In this context, it is desirable to elucidate a method to select validated reference sets of epitopes to allow detection of T and B cells. However, the ever-growing information contained in the Immune Epitope Database (IEDB) and the differences in quality and subjects studied between epitope assays make this task complicated. In this study, we develop a novel method to automatically select reference epitope sets according to a categorization system employed by the IEDB. From the sets generated, three epitope sets (EBV, mycobacteria and dengue) were experimentally validated by detection of T cell reactivity ex vivo from human donors. Furthermore, a web application that will potentially be implemented in the IEDB was created to allow users the capacity to generate customized epitope sets.
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spelling pubmed-46290452015-11-15 Automatic Generation of Validated Specific Epitope Sets Carrasco Pro, Sebastian Sidney, John Paul, Sinu Lindestam Arlehamn, Cecilia Weiskopf, Daniela Peters, Bjoern Sette, Alessandro J Immunol Res Research Article Accurate measurement of B and T cell responses is a valuable tool to study autoimmunity, allergies, immunity to pathogens, and host-pathogen interactions and assist in the design and evaluation of T cell vaccines and immunotherapies. In this context, it is desirable to elucidate a method to select validated reference sets of epitopes to allow detection of T and B cells. However, the ever-growing information contained in the Immune Epitope Database (IEDB) and the differences in quality and subjects studied between epitope assays make this task complicated. In this study, we develop a novel method to automatically select reference epitope sets according to a categorization system employed by the IEDB. From the sets generated, three epitope sets (EBV, mycobacteria and dengue) were experimentally validated by detection of T cell reactivity ex vivo from human donors. Furthermore, a web application that will potentially be implemented in the IEDB was created to allow users the capacity to generate customized epitope sets. Hindawi Publishing Corporation 2015 2015-10-19 /pmc/articles/PMC4629045/ /pubmed/26568965 http://dx.doi.org/10.1155/2015/763461 Text en Copyright © 2015 Sebastian Carrasco Pro et al. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Carrasco Pro, Sebastian
Sidney, John
Paul, Sinu
Lindestam Arlehamn, Cecilia
Weiskopf, Daniela
Peters, Bjoern
Sette, Alessandro
Automatic Generation of Validated Specific Epitope Sets
title Automatic Generation of Validated Specific Epitope Sets
title_full Automatic Generation of Validated Specific Epitope Sets
title_fullStr Automatic Generation of Validated Specific Epitope Sets
title_full_unstemmed Automatic Generation of Validated Specific Epitope Sets
title_short Automatic Generation of Validated Specific Epitope Sets
title_sort automatic generation of validated specific epitope sets
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4629045/
https://www.ncbi.nlm.nih.gov/pubmed/26568965
http://dx.doi.org/10.1155/2015/763461
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