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Employment (3)

École Polytechnique Fédérale de Lausanne: Lausanne, VD, CH

2015-04-01 to present | Scientist (Laboratory of Protein Design and Immunoengineering (LPDI))
Employment
Source: Self-asserted source
Jaume Bonet

Universitat Pompeu Fabra: Barcelona, Catalunya, ES

2009-09-01 to 2015-03-31 | Predoctoral Fellow (Structural BioInformatics Lab (SBI))
Employment
Source: Self-asserted source
Jaume Bonet

Universitat Pompeu Fabra: Barcelona, Catalunya, ES

2005-09-01 to 2009-08-31 | Research Support Staff (Structural BioInformatics Lab (SBI))
Employment
Source: Self-asserted source
Jaume Bonet

Education and qualifications (3)

Universitat Pompeu Fabra: Barcelona, Catalunya, ES

2009-09-01 to 2015-01-31 | PhD in Health and Life Sciences (Department of Experimental and Health Sciences)
Education
Source: Self-asserted source
Jaume Bonet

Universitat Oberta de Catalunya: Barcelona, Catalunya, ES

2006-09-01 to 2014-12-31 | B.Sc. in Computer Sciences
Education
Source: Self-asserted source
Jaume Bonet

Universitat Pompeu Fabra: Barcelona, Catalunya, ES

2000-09-01 to 2005-07-31 | 5-year degree in Biology (Department of Experimental and Health Sciences)
Education
Source: Self-asserted source
Jaume Bonet

Works (45)

A PD-L1/EGFR bispecific antibody combines immune checkpoint blockade and direct anti-cancer action for an enhanced anti-tumor response

OncoImmunology
2023-12-31 | Journal article
Contributors: Laura Rubio-Pérez; Rodrigo Lázaro-Gorines; Seandean L. Harwood; Marta Compte; Rocío Navarro; Antonio Tapia-Galisteo; Jaume Bonet; Belén Blanco; Simon Lykkemark; Ángel Ramírez-Fernández et al.
Source: check_circle
Crossref

SBILib: a handle for protein modeling and engineering

Bioinformatics
2023-10-03 | Journal article
Contributors: Patrick Gohl; Jaume Bonet; Oriol Fornes; Joan Planas-Iglesias; Narcís Fernandez-Fuentes; Baldo Oliva; Lenore Cowen
Source: check_circle
Crossref

A generic framework for hierarchical de novo protein design

2022-04-08 | Preprint
Contributors: Zander Harteveld; Jaume Bonet; Stéphane Rosset; Che Yang; Fabian Sesterhenn; Bruno E. Correia
Source: check_circle
Crossref

RosettaSurf—A surface-centric computational design approach

PLOS Computational Biology
2022-03-16 | Journal article
Contributors: Andreas Scheck; Joanna Slusky; Stéphane Rosset; Michaël Defferrard; Andreas Loukas; Jaume Bonet; Pierre Vandergheynst; Bruno E. Correia
Source: check_circle
Crossref

RosettaSurf - a surface-centric computational design approach

2021-06-16 | Other
Contributors: Andreas Scheck; Stéphane Rosset; Michaël Defferrard; Andreas Loukas; Jaume Bonet; Pierre Vandergheynst; Bruno E Correia
Source: check_circle
Crossref

Mutational hotspot in the SARS-CoV-2 Spike protein N-terminal domain conferring immune escape potential

2021-05-28 | Other
Contributors: Slawomir Kubik; Nils Arrigo; Jaume Bonet; Zhenyu Xu
Source: check_circle
Crossref

Bottom-up de novo design of functional proteins with complex structural features

Nature Chemical Biology
2021-04 | Journal article
Contributors: Che Yang; Fabian Sesterhenn; Jaume Bonet; Eva A. van Aalen; Leo Scheller; Luciano A. Abriata; Johannes T. Cramer; Xiaolin Wen; Stéphane Rosset; Sandrine Georgeon et al.
Source: check_circle
Crossref

Using collections of structural models to predict changes of binding affinity caused by mutations in protein–protein interactions

Protein Science
2020-10 | Journal article
Contributors: Alberto Meseguer; Lluis Dominguez; Patricia M. Bota; Joaquim Aguirre‐Plans; Jaume Bonet; Narcis Fernandez‐Fuentes; Baldo Oliva
Source: check_circle
Crossref

De novo protein design enables the precise induction of RSV-neutralizing antibodies

Science
2020-05-15 | Journal article
Contributors: Fabian Sesterhenn; Che Yang; Jaume Bonet; Johannes T. Cramer; Xiaolin Wen; Yimeng Wang; Chi-I Chiang; Luciano A. Abriata; Iga Kucharska; Giacomo Castoro et al.
Source: check_circle
Crossref

A bottom-up approach for thede novodesign of functional proteins

2020-03-12 | Preprint
Contributors: Che Yang; Fabian Sesterhenn; Jaume Bonet; Eva van Aalen; Leo Scheller; Luciano A Abriata; Johannes T Cramer; Xiaolin Wen; Stéphane Rosset; Sandrine Georgeon et al.
Source: check_circle
Crossref

rstoolbox - a Python library for large-scale analysis of computational protein design data and structural bioinformatics

BMC Bioinformatics
2019-12 | Journal article
Part of ISSN: 1471-2105
Source: Self-asserted source
Jaume Bonet

Boosting subdominant neutralizing antibody responses with a computationally designed epitope-focused immunogen

PLOS Biology
2019-02-21 | Journal article
Contributors: Fabian Sesterhenn; James Munro; Marie Galloux; Sabrina S. Vollers; Lucia Csepregi; Che Yang; Delphyne Descamps; Jaume Bonet; Simon Friedensohn; Pablo Gainza et al.
Source: check_circle
Crossref

Rosetta FunFolDes – A general framework for the computational design of functional proteins

PLOS Computational Biology
2018-11-19 | Journal article
Contributors: Jaume Bonet; Sarel Jacob Fleishman; Sarah Wehrle; Karen Schriever; Che Yang; Anne Billet; Fabian Sesterhenn; Andreas Scheck; Freyr Sverrisson; Barbora Veselkova et al.
Source: check_circle
Crossref

Alternative interaction sites in the influenza A virus nucleoprotein mediate viral escape from the importin-α7 mediated nuclear import pathway

2018-10-19 | Other
Contributors: Patricia Resa-Infante; Jaume Bonet; Swantje Thiele; Malik Alawi; Baldo Oliva; Gülsah Gabriel
Source: check_circle
Crossref

Boosting subdominant neutralizing antibody responses with a computationally designed epitope-focused immunogen

2018-09-29 | Other
Contributors: F Sesterhenn; M Galloux; SS Vollers; L Csepregi; C Yang; D Descamps; J Bonet; S Friedensohn; P Gainza; P Corthésy et al.
Source: check_circle
Crossref

rstoolbox: management and analysis of computationally designed structural ensembles

2018-09-27 | Other
Contributors: Jaume Bonet; Zander Harteveld; Fabian Sesterhenn; Andreas Scheck; Bruno E. Correia
Source: check_circle
Crossref

Bispecific light T-cell engagers for gene-based immunotherapy of epidermal growth factor receptor (EGFR)-positive malignancies

Cancer Immunology, Immunotherapy
2018-08-04 | Journal article
Contributors: Kasper Mølgaard; Seandean L. Harwood; Marta Compte; Nekane Merino; Jaume Bonet; Ana Alvarez-Cienfuegos; Kasper Mikkelsen; Natalia Nuñez-Prado; Ana Alvarez-Mendez; Laura Sanz et al.
Source: check_circle
Crossref

On the mechanisms of protein interactions: predicting their affinity from unbound tertiary structures

Bioinformatics
2018-02-15 | Journal article
Contributors: Manuel Alejandro Marín-López; Joan Planas-Iglesias; Joaquim Aguirre-Plans; Jaume Bonet; Javier Garcia-Garcia; Narcis Fernandez-Fuentes; Baldo Oliva; Alfonso Valencia; Anna Tramontano
Source: check_circle
Crossref

ADP-ribose-derived nuclear ATP synthesis by NUDIX5 is required for chromatin remodeling

Science
2016 | Journal article
WOSUID:

WOS:000377045700043

Contributors: Wright, Roni H. G.; Lioutas, Antonios; Le Dily, Francois; Soronellas, Daniel; Pohl, Andy; Bonet, Jaume; Nacht, A. S.; Samino, Sara; Font-Mateu, Jofre; Vicent, Guillermo P. et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID

Amyloid-beta Peptide Nitrotyrosination Stabilizes Oligomers and Enhances NMDAR-Mediated Toxicity.

The Journal of neuroscience : the official journal of the Society for Neuroscience
2016 | Journal article
WOSUID:

MEDLINE:27852777

Contributors: Guivernau, Biuse; Bonet, Jaume; Valls-Comamala, Victoria; Bosch-Morato, Monica; Godoy, Juan A; Inestrosa, Nibaldo C; Peralvarez-Marin, Alex; Fernandez-Busquets, Xavier; Andreu, David; Oliva, Baldomero et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID

Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis

Nature Communications
2016 | Journal article
WOSUID:

WOS:000381947700001

Contributors: Sieberts, Solveig K.; Zhu, Fan; Garcia-Garcia, Javier; Stahl, Eli; Pratap, Abhishek; Pandey, Gaurav; Pappas, Dimitrios; Aguilar, Daniel; Anton, Bernat; Bonet, Jaume et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID
grade
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Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis (vol 7, 12460, 2016)

Nature Communications
2016 | Journal article
WOSUID:

WOS:000385551300001

Contributors: Sieberts, Solveig K.; Zhu, Fan; Garcia-Garcia, Javier; Stahl, Eli; Pratap, Abhishek; Pandey, Gaurav; Pappas, Dimitrios; Aguilar, Daniel; Anton, Bernat; Bonet, Jaume et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID

Inferring causal molecular networks: empirical assessment through a community-based effort

Nature Methods
2016 | Journal article
WOSUID:

WOS:000374084800015

Contributors: Hill, Steven M.; Heiser, Laura M.; Cokelaer, Thomas; Unger, Michael; Nesser, Nicole K.; Carlin, Daniel E.; Zhang, Yang; Sokolov, Artem; Paull, Evan O.; Wong, Chris K. et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID

InteractoMIX: a suite of computational tools to exploit interactomes in biological and clinical research

Biochemical Society Transactions
2016 | Journal article
WOSUID:

WOS:000377521400038

Contributors: Poglayen, Daniel; Alejandro Marin-Lopez, Manuel; Bonet, Jaume; Fornes, Oriol; Garcia-Garcia, Javier; Planas-Iglesias, Joan; Segura, Joan; Oliva, Baldo; Fernandez-Fuentes, Narcis
Source: Self-asserted source
Jaume Bonet via ResearcherID

Intramolecular trimerization, a novel strategy for making multispecific antibodies with controlled orientation of the antigen binding domains

Scientific Reports
2016 | Journal article
WOSUID:

WOS:000378515900002

Contributors: Alvarez-Cienfuegos, Ana; Nunez-Prado, Natalia; Compte, Marta; Cuesta, Angel M.; Blanco-Toribio, Ana; Harwood, Seandean Lykke; Villate, Maider; Merino, Nekane; Bonet, Jaume; Navarro, Rocio et al.
Source: Self-asserted source
Jaume Bonet via ResearcherID

Amyloid-β Peptide Nitrotyrosination Stabilizes Oligomers and Enhances NMDAR-Mediated Toxicity

The Journal of Neuroscience
2016-11-16 | Journal article
Contributors: Biuse Guivernau; Jaume Bonet; Victòria Valls-Comamala; Mònica Bosch-Morató; Juan A. Godoy; Nibaldo C. Inestrosa; Alex Perálvarez-Marín; Xavier Fernández-Busquets; David Andreu; Baldomero Oliva et al.
Source: check_circle
Crossref

Targeting importin-α7 as a therapeutic approach against pandemic influenza viruses.

2015-06 | Journal article
Contributors: Resa-Infante P; Paterson D; Bonet J; Otte A; Oliva B; Fodor E; Gabriel G
Source: Self-asserted source
Jaume Bonet via Europe PubMed Central

ArchDB 2014: structural classification of loops in proteins

2014 | Journal article
Part of ISSN: 0305-1048
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Frag'r'Us: knowledge-based sampling of protein backbone conformations for de novo structure-based protein design

Bioinformatics
2014 | Journal article
Contributors: Bonet, Jaume; Segura, Joan; Planas-Iglesias, Joan; Oliva, Baldomero; Fernandez-Fuentes, Narcis
Source: Self-asserted source
Jaume Bonet via ResearcherID

On the Use of Knowledge-Based Potentials for the Evaluation of Models of Protein-Protein, Protein-DNA, and Protein-RNA Interactions

Advances in Protein Chemistry and Structural Biology, Vol 94
2014 | Book chapter
Contributors: Fornes, Oriol; Garcia-Garcia, Javier; Bonet, Jaume; Oliva, Baido
Source: Self-asserted source
Jaume Bonet via ResearcherID

Elongation of the C-terminal domain of an anti-amyloid β single-chain variable fragment increases its thermodynamic stability and decreases its aggregation tendency

2013 | Journal article
Part of ISSN: 1942-0862
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Generation and characterization of monospecific and bispecific hexavalent trimerbodies

2013 | Journal article
Part of ISSN: 1942-0862
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

iLoops: a protein-protein interaction prediction server based on structural features

2013 | Journal article
Part of ISSN: 1367-4803
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Understanding Protein–Protein Interactions Using Local Structural Features

2013 | Journal article
Part of ISSN: 0022-2836
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

CDK2-dependent activation of PARP-1 is required for hormonal gene regulation in breast cancer cells

Genes & Development
2012 | Journal article
Contributors: Wright, Roni H. G.; Castellano, Giancarlo; Bonet, Jaume; Le Dily, Francois; Font-Mateu, Jofre; Ballare, Cecilia; Silvina Nacht, A.; Soronellas, Daniel; Oliva, Baldo; Beato, Miguel
Source: Self-asserted source
Jaume Bonet via ResearcherID

Networks of ProteinProtein Interactions: From Uncertainty to Molecular Details

2012 | Journal article
Part of ISSN: 1868-1743
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Structural Bioinformatics of Proteins: Predicting the Tertiary and Quaternary Structure of Proteins from Sequence

Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search

Prediction of a new class of RNA recognition motif

2011 | Journal article
Part of ISSN: 1610-2940
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Multivalent antibodies: when design surpasses evolution

2010 | Journal article
Part of ISSN: 0167-7799
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Prediction of a new class of RNA recognition motif

Journal of molecular modeling
2010 | Journal article
DOI:

papers://E61FF1BB-6963-4B1B-8F5E-5A43D21D16EB/Paper/p3930

Contributors: Cerdà-Costa, N.; Bonet, J.; Fernández, M. R.; Avilés, F. X.; Oliva, B.; Villegas, S.
Source: Self-asserted source
Jaume Bonet via ResearcherID

In Vivo Tumor Targeting and Imaging with Engineered Trivalent Antibody Fragments Containing Collagen-Derived Sequences

2009 | Journal article
Part of ISSN: 1932-6203
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Characterization of Protein Hubs by Inferring Interacting Motifs from Protein Interactions

2007 | Journal article
Part of ISSN: 1553-734X
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎

Characterization of Protein Hubs by Inferring Interacting Motifs from Protein Interactions

2005 | Journal article
Part of ISSN: 1553-734X
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search

Per residue characterization of protein-protein interfaces: a relationship between stability and functionality?

Febs Journal
2005 | Journal article
Contributors: Villa-Freixa, J.; Johnston, M.; Bonet, J.
Source: Self-asserted source
Jaume Bonet via ResearcherID

The role of residue stability in transient protein-protein interactions involved in enzymatic phosphate hydrolysis. A computational study

2005 | Journal article
Part of ISSN: 0887-3585
Source: Self-asserted source
Jaume Bonet via Crossref Metadata Search
grade
Preferred source (of 2)‎