A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma

Background: The main purpose of this article is to introduce a universal mathematics-aided vaccine design method against malignant melanoma based on neoantigens. The universal method can be adapted to the mutanome of each patient so that a specific candidate vaccine can be tailored for the correspon...

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Autores: Malaina, Iker, Martínez, Luis, Montoya, Juan Manuel, Alonso, Santos, Boyano, María Dolores, Asumendi, Aintzane, Izu, Rosa, Sanchez-Diez, Ana, Cancho-Galan, Goikoane, De la Fuente, Ildefonso M.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2023
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/360810
Acceso en línea:http://hdl.handle.net/10261/360810
https://api.elsevier.com/content/abstract/scopus_id/85146742215
Access Level:acceso abierto
Palabra clave:Vaccine design
Melanoma
Combinatorial optimization
Immunogenicity
Bioinformatics
Personalized medicine
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spelling A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against MelanomaMalaina, IkerMartínez, LuisMontoya, Juan ManuelAlonso, SantosBoyano, María DoloresAsumendi, AintzaneIzu, RosaSanchez-Diez, AnaCancho-Galan, GoikoaneDe la Fuente, Ildefonso M.Vaccine designMelanomaCombinatorial optimizationImmunogenicityBioinformaticsPersonalized medicineBackground: The main purpose of this article is to introduce a universal mathematics-aided vaccine design method against malignant melanoma based on neoantigens. The universal method can be adapted to the mutanome of each patient so that a specific candidate vaccine can be tailored for the corresponding patientMethods: We extracted the 1134 most frequent mutations in melanoma, and we associated each of them to a vector with 10 components estimated with different bioinformatics tools, for which we found an aggregated value according to a set of weights, and then we ordered them in decreasing order of the scoresResults: We prepared a universal table of the most frequent mutations in melanoma ordered in decreasing order of viability to be used as candidate vaccines, so that the selection of a set of appropriate peptides for each particular patient can be easily and quickly implemented according to their specific mutanome and transcription profileConclusions: We have shown that the techniques that are commonly used for the design of personalized anti-tumor vaccines against malignant melanoma can be adapted for the design of universal rankings of neoantigens that originate personalized vaccines when the mutanome and transcription profile of specific patients is considered, with the consequent savings in time and money, shortening the design and production timeThis research was funded by Basque Government grant number IT456-22, and by UPV/EHU and BCAM grant number US21/27Peer reviewedMultidisciplinary Digital Publishing InstituteUniversidad del País VascoBasque Center for Applied MathematicsDe la Fuente, Ildefonso M. [0000-0001-6548-7583]Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202420242023info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/360810https://api.elsevier.com/content/abstract/scopus_id/85146742215reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)InglésLife (Basel, Switzerland)https://doi.org/10.3390/life13010155Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/3608102026-05-22T06:33:51Z
dc.title.none.fl_str_mv A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
title A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
spellingShingle A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
Malaina, Iker
Vaccine design
Melanoma
Combinatorial optimization
Immunogenicity
Bioinformatics
Personalized medicine
title_short A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
title_full A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
title_fullStr A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
title_full_unstemmed A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
title_sort A Universal Antigen-Ranking Method to Design Personalized Vaccines Targeting Neoantigens against Melanoma
dc.creator.none.fl_str_mv Malaina, Iker
Martínez, Luis
Montoya, Juan Manuel
Alonso, Santos
Boyano, María Dolores
Asumendi, Aintzane
Izu, Rosa
Sanchez-Diez, Ana
Cancho-Galan, Goikoane
De la Fuente, Ildefonso M.
author Malaina, Iker
author_facet Malaina, Iker
Martínez, Luis
Montoya, Juan Manuel
Alonso, Santos
Boyano, María Dolores
Asumendi, Aintzane
Izu, Rosa
Sanchez-Diez, Ana
Cancho-Galan, Goikoane
De la Fuente, Ildefonso M.
author_role author
author2 Martínez, Luis
Montoya, Juan Manuel
Alonso, Santos
Boyano, María Dolores
Asumendi, Aintzane
Izu, Rosa
Sanchez-Diez, Ana
Cancho-Galan, Goikoane
De la Fuente, Ildefonso M.
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Universidad del País Vasco
Basque Center for Applied Mathematics
De la Fuente, Ildefonso M. [0000-0001-6548-7583]
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Vaccine design
Melanoma
Combinatorial optimization
Immunogenicity
Bioinformatics
Personalized medicine
topic Vaccine design
Melanoma
Combinatorial optimization
Immunogenicity
Bioinformatics
Personalized medicine
description Background: The main purpose of this article is to introduce a universal mathematics-aided vaccine design method against malignant melanoma based on neoantigens. The universal method can be adapted to the mutanome of each patient so that a specific candidate vaccine can be tailored for the corresponding patient
publishDate 2023
dc.date.none.fl_str_mv 2023
2024
2024
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/360810
https://api.elsevier.com/content/abstract/scopus_id/85146742215
url http://hdl.handle.net/10261/360810
https://api.elsevier.com/content/abstract/scopus_id/85146742215
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Life (Basel, Switzerland)
https://doi.org/10.3390/life13010155
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Multidisciplinary Digital Publishing Institute
publisher.none.fl_str_mv Multidisciplinary Digital Publishing Institute
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.812455

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