Immunoinformatics to guide vaccine design and biomarker discovery
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Document Type
Document Version
Author
Director
Guallar i Tasies, Víctor
Porta Pardo, Eduard
Porta Pardo, Eduard
Tutor
Oliva Miguel, Baldomero
Other authors
Publication Date
Pages
135 p.
Embargo date
2027-09-19T02:00:00Z
Citation
Farriol Duran, R. Immunoinformatics to guide vaccine design and biomarker discovery. Universitat Pompeu Fabra; 2025. handle: http://hdl.handle.net/10803/695658
This citation was generated automatically.
Citation
Doctoral program
Programa de Doctorat en Biomedicina
Abstract
La present tesi doctoral titulada "Immunoinformàtica per guiar el disseny de vacunes i el descobriment de biomarcadors" és un compendi d'articles dividit en una primera part de immunoinformàtica de cèl·lules T i una segona dedicada a estudis en cèl·lules B. Els articles de cèl·lules T engloben el desenvolupament de mètodes computacionals per a la predicció de la immunogenicitat d'epítops T i la predicció del seu processant antigènic (Article 1. PredIG i Article 2. NetCleave). A més, aquests mètodes són aplicats pel disseny de vacunes dirigides a cèl·lules T contra malalties infeccioses víriques (Articles 3 i 4) i pel descobriment de biomarcadors de resposta per a inhibidors de punts de control immunitaris en el context de les immunoteràpies de càncer (Article 5). La part de cèl·lules B està organitzada de forma similar enllaçant el desenvolupament d'un flux de treball computacional per a refinar les prediccions d'epítops B (Article 6. Brewpitopes); seguida per aplicacions en el desenvolupament d'anticossos terapèutics contra la COVID-19 (Article 7); i la composició d'una signatura d'anticossos per a la detecció precoç de càncer de pulmó (Article 8). La troballa principal d'aquest treball és el desenvolupament de predictors d'epítops i fluxos de treball computacionals focalitzats en el refinament de la immunogenicitat i l'antigenicitat d'epítops T i B respectivament. A més de la seva aplicació translacional per a guiar, de forma efectiva i comprensiva, projectes de disseny de vacunes i descobriment de biomarcadors en malalties víriques i càncer.
The present doctoral thesis entitled "Immunoinformatics to guide vaccine design and biomarker discovery" is an article compendium divided in a first T cell immunoinformatics part and a second dedicated to B cell studies. The T cell articles encompass computational method development efforts in T cell epitope immunogenicity and antigen processing prediction (Article 1. PredIG and Article 2. NetCleave), applications in T-cell-directed vaccine design against viral diseases (Articles 3 and 4) and to response biomarker discovery for immune checkpoint inhibitors in cancer immunotherapy (Article 5). The B cell part is organized similarly entailing the development of a pipeline to refine B cell epitope predictions (Article 6. Brewpitopes); and applications in therapeutic antibody development for COVID-19 (Article 7); and an antibody-based signature for early lung cancer detection (Article 8). The milestone of this work is the development of epitope predictors and pipelines focused on immunogenicity and antigenicity refinement and their application for an effective and comprehensive guidance in vaccine design and biomarker discovery projects in viral infection and cancer.
The present doctoral thesis entitled "Immunoinformatics to guide vaccine design and biomarker discovery" is an article compendium divided in a first T cell immunoinformatics part and a second dedicated to B cell studies. The T cell articles encompass computational method development efforts in T cell epitope immunogenicity and antigen processing prediction (Article 1. PredIG and Article 2. NetCleave), applications in T-cell-directed vaccine design against viral diseases (Articles 3 and 4) and to response biomarker discovery for immune checkpoint inhibitors in cancer immunotherapy (Article 5). The B cell part is organized similarly entailing the development of a pipeline to refine B cell epitope predictions (Article 6. Brewpitopes); and applications in therapeutic antibody development for COVID-19 (Article 7); and an antibody-based signature for early lung cancer detection (Article 8). The milestone of this work is the development of epitope predictors and pipelines focused on immunogenicity and antigenicity refinement and their application for an effective and comprehensive guidance in vaccine design and biomarker discovery projects in viral infection and cancer.
Keywords
Immunoinformática, Vacunas, Biomarcador, Células T, Células B, Immunoinformàtica, Vacunes, Biomarcador, Cèl·lules T, Cèl·lules B, Immunoinformatics, Vaccines, Biomarker, T cells, B cells
Subjects
57 - Biology
Publisher
Universitat Pompeu Fabra
