High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum

Autores
Christiansen, Anders; Kringelum, Jens V.; Hansen, Christian S.; Bøgh, Katrine L.; Sullivan, Eric; Patel, Jigar; Rigby, Neil M.; Eiwegger, Thomas; Szépfalusi, Zsolt; Masi, Federico De; Nielsen, Morten; Lund, Ole; Dufva, Martin
Año de publicación
2015
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Phage display is a prominent screening technique with a multitude of applications including therapeutic antibody development and mapping of antigen epitopes. In this study, phages were selected based on their interaction with patient serum and exhaustively characterised by high-throughput sequencing. A bioinformatics approach was developed in order to identify peptide motifs of interest based on clustering and contrasting to control samples. Comparison of patient and control samples confirmed a major issue in phage display, namely the selection of unspecific peptides. The potential of the bioinformatic approach was demonstrated by identifying epitopes of a prominent peanut allergen, Ara h 1, in sera from patients with severe peanut allergy. The identified epitopes were confirmed by high-density peptide micro-arrays. The present study demonstrates that high-throughput sequencing can empower phage display by (i) enabling the analysis of complex biological samples, (ii) circumventing the traditional laborious picking and functional testing of individual phage clones and (iii) reducing the number of selection rounds.
Fil: Christiansen, Anders. Technical University of Denmark; Dinamarca
Fil: Kringelum, Jens V.. Technical University of Denmark; Dinamarca
Fil: Hansen, Christian S.. Technical University of Denmark; Dinamarca
Fil: Bøgh, Katrine L.. Technical University of Denmark; Dinamarca
Fil: Sullivan, Eric. Roche Nimble Gen; Estados Unidos
Fil: Patel, Jigar. Roche Nimble Gen; Estados Unidos
Fil: Rigby, Neil M.. Institute of Food Research; Reino Unido
Fil: Eiwegger, Thomas. Medical University of Vienna; Austria
Fil: Szépfalusi, Zsolt. Medical University of Vienna; Austria
Fil: Masi, Federico De. Technical University of Denmark; Dinamarca
Fil: Nielsen, Morten. Technical University of Denmark; Dinamarca. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); Argentina
Fil: Lund, Ole. Technical University of Denmark; Dinamarca
Fil: Dufva, Martin. Technical University of Denmark; Dinamarca
Materia
Allergy
Epitope mapping
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/51241
Acceder
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network_acronym_str CONICETDig
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network_name_str CONICET Digital (CONICET)
spelling High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serumChristiansen, AndersKringelum, Jens V.Hansen, Christian S.Bøgh, Katrine L.Sullivan, EricPatel, JigarRigby, Neil M.Eiwegger, ThomasSzépfalusi, ZsoltMasi, Federico DeNielsen, MortenLund, OleDufva, MartinAllergyEpitope mappinghttps://purl.org/becyt/ford/3.3https://purl.org/becyt/ford/3Phage display is a prominent screening technique with a multitude of applications including therapeutic antibody development and mapping of antigen epitopes. In this study, phages were selected based on their interaction with patient serum and exhaustively characterised by high-throughput sequencing. A bioinformatics approach was developed in order to identify peptide motifs of interest based on clustering and contrasting to control samples. Comparison of patient and control samples confirmed a major issue in phage display, namely the selection of unspecific peptides. The potential of the bioinformatic approach was demonstrated by identifying epitopes of a prominent peanut allergen, Ara h 1, in sera from patients with severe peanut allergy. The identified epitopes were confirmed by high-density peptide micro-arrays. The present study demonstrates that high-throughput sequencing can empower phage display by (i) enabling the analysis of complex biological samples, (ii) circumventing the traditional laborious picking and functional testing of individual phage clones and (iii) reducing the number of selection rounds.Fil: Christiansen, Anders. Technical University of Denmark; DinamarcaFil: Kringelum, Jens V.. Technical University of Denmark; DinamarcaFil: Hansen, Christian S.. Technical University of Denmark; DinamarcaFil: Bøgh, Katrine L.. Technical University of Denmark; DinamarcaFil: Sullivan, Eric. Roche Nimble Gen; Estados UnidosFil: Patel, Jigar. Roche Nimble Gen; Estados UnidosFil: Rigby, Neil M.. Institute of Food Research; Reino UnidoFil: Eiwegger, Thomas. Medical University of Vienna; AustriaFil: Szépfalusi, Zsolt. Medical University of Vienna; AustriaFil: Masi, Federico De. Technical University of Denmark; DinamarcaFil: Nielsen, Morten. Technical University of Denmark; Dinamarca. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); ArgentinaFil: Lund, Ole. Technical University of Denmark; DinamarcaFil: Dufva, Martin. Technical University of Denmark; DinamarcaNature Publishing Group2015-08info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/51241Christiansen, Anders; Kringelum, Jens V.; Hansen, Christian S.; Bøgh, Katrine L.; Sullivan, Eric; et al.; High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum; Nature Publishing Group; Scientific Reports; 5; 8-2015; 1-132045-2322CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1038/srep12913info:eu-repo/semantics/altIdentifier/url/https://www.nature.com/articles/srep12913info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-15T15:00:18Zoai:ri.conicet.gov.ar:11336/51241instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-15 15:00:18.835CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
title High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
spellingShingle High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
Christiansen, Anders
Allergy
Epitope mapping
title_short High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
title_full High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
title_fullStr High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
title_full_unstemmed High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
title_sort High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum
dc.creator.none.fl_str_mv Christiansen, Anders
Kringelum, Jens V.
Hansen, Christian S.
Bøgh, Katrine L.
Sullivan, Eric
Patel, Jigar
Rigby, Neil M.
Eiwegger, Thomas
Szépfalusi, Zsolt
Masi, Federico De
Nielsen, Morten
Lund, Ole
Dufva, Martin
author Christiansen, Anders
author_facet Christiansen, Anders
Kringelum, Jens V.
Hansen, Christian S.
Bøgh, Katrine L.
Sullivan, Eric
Patel, Jigar
Rigby, Neil M.
Eiwegger, Thomas
Szépfalusi, Zsolt
Masi, Federico De
Nielsen, Morten
Lund, Ole
Dufva, Martin
author_role author
author2 Kringelum, Jens V.
Hansen, Christian S.
Bøgh, Katrine L.
Sullivan, Eric
Patel, Jigar
Rigby, Neil M.
Eiwegger, Thomas
Szépfalusi, Zsolt
Masi, Federico De
Nielsen, Morten
Lund, Ole
Dufva, Martin
author2_role author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Allergy
Epitope mapping
topic Allergy
Epitope mapping
purl_subject.fl_str_mv https://purl.org/becyt/ford/3.3
https://purl.org/becyt/ford/3
dc.description.none.fl_txt_mv Phage display is a prominent screening technique with a multitude of applications including therapeutic antibody development and mapping of antigen epitopes. In this study, phages were selected based on their interaction with patient serum and exhaustively characterised by high-throughput sequencing. A bioinformatics approach was developed in order to identify peptide motifs of interest based on clustering and contrasting to control samples. Comparison of patient and control samples confirmed a major issue in phage display, namely the selection of unspecific peptides. The potential of the bioinformatic approach was demonstrated by identifying epitopes of a prominent peanut allergen, Ara h 1, in sera from patients with severe peanut allergy. The identified epitopes were confirmed by high-density peptide micro-arrays. The present study demonstrates that high-throughput sequencing can empower phage display by (i) enabling the analysis of complex biological samples, (ii) circumventing the traditional laborious picking and functional testing of individual phage clones and (iii) reducing the number of selection rounds.
Fil: Christiansen, Anders. Technical University of Denmark; Dinamarca
Fil: Kringelum, Jens V.. Technical University of Denmark; Dinamarca
Fil: Hansen, Christian S.. Technical University of Denmark; Dinamarca
Fil: Bøgh, Katrine L.. Technical University of Denmark; Dinamarca
Fil: Sullivan, Eric. Roche Nimble Gen; Estados Unidos
Fil: Patel, Jigar. Roche Nimble Gen; Estados Unidos
Fil: Rigby, Neil M.. Institute of Food Research; Reino Unido
Fil: Eiwegger, Thomas. Medical University of Vienna; Austria
Fil: Szépfalusi, Zsolt. Medical University of Vienna; Austria
Fil: Masi, Federico De. Technical University of Denmark; Dinamarca
Fil: Nielsen, Morten. Technical University of Denmark; Dinamarca. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús). Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas "Dr. Raúl Alfonsín" (sede Chascomús); Argentina
Fil: Lund, Ole. Technical University of Denmark; Dinamarca
Fil: Dufva, Martin. Technical University of Denmark; Dinamarca
description Phage display is a prominent screening technique with a multitude of applications including therapeutic antibody development and mapping of antigen epitopes. In this study, phages were selected based on their interaction with patient serum and exhaustively characterised by high-throughput sequencing. A bioinformatics approach was developed in order to identify peptide motifs of interest based on clustering and contrasting to control samples. Comparison of patient and control samples confirmed a major issue in phage display, namely the selection of unspecific peptides. The potential of the bioinformatic approach was demonstrated by identifying epitopes of a prominent peanut allergen, Ara h 1, in sera from patients with severe peanut allergy. The identified epitopes were confirmed by high-density peptide micro-arrays. The present study demonstrates that high-throughput sequencing can empower phage display by (i) enabling the analysis of complex biological samples, (ii) circumventing the traditional laborious picking and functional testing of individual phage clones and (iii) reducing the number of selection rounds.
publishDate 2015
dc.date.none.fl_str_mv 2015-08
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/51241
Christiansen, Anders; Kringelum, Jens V.; Hansen, Christian S.; Bøgh, Katrine L.; Sullivan, Eric; et al.; High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum; Nature Publishing Group; Scientific Reports; 5; 8-2015; 1-13
2045-2322
CONICET Digital
CONICET
url http://hdl.handle.net/11336/51241
identifier_str_mv Christiansen, Anders; Kringelum, Jens V.; Hansen, Christian S.; Bøgh, Katrine L.; Sullivan, Eric; et al.; High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum; Nature Publishing Group; Scientific Reports; 5; 8-2015; 1-13
2045-2322
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1038/srep12913
info:eu-repo/semantics/altIdentifier/url/https://www.nature.com/articles/srep12913
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Nature Publishing Group
publisher.none.fl_str_mv Nature Publishing Group
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.22299

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